CBC Newsletter September 2019

Group Data Therapy Sessions - Biweekly on Fridays at 10:30am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  
 
We will be hosting our first Fall Data Therapy Session for Open Consultation (bring your questions!) on Friday, September 13th at 10:30am in ESB 304.  
 
Want to join us from your office?  Follow the web conference link: http://s.uconn.edu/esb304webex
 
 
New Member Welcome!
Please join me in welcoming Dr. Noah Reid to the Computational Biology Core.  Noah will be focusing his efforts on developing high quality training materials as well as developing new analytical workflows and visualization tools.  Come by and meet him in ESB during Data Therapy!
Xanadu HPC is available to you!
If you are seeking computational resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select Xanadu)
 
To learn how to access and interact with the Xanadu cluster, please go here:
 
Institute for Systems Genomics Seed Grants
The Institute for Systems Genomics is pleased to announce a new seed grant opportunity available to UConn faculty. This seed grant mechanism is intended to facilitate the development and submission of external grant applications by providing genomics data generated from one of the ISG core facilities: the Center for Genome Innovation (CGI), the Computational Biology Core (CBC), and the Single Cell Genomics Center (SCGC).  
 
ISG seed grants provide up to $20,000 in seed funding to facilitate the initiation, completion, or advancement of research projects using the CGI, CBC, or SCGC. Applications are due September 16, 2019. Click here to view our guidelines and eligibility requirements.
 
CBC Office Hours at UCH on Mondays/Tuesdays:
Dr. Vijender Singh is available 9:30am to 5:30pm at UCH (L7048C).  His next visit is Monday, September 23rd.

Announcing more training workshops!
CBC Workshops are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 12 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.  
 
Pathway Analysis (Bioinformatics)
Dates: November 21-22, 2019, 9-5pm
Location: Storrs Campus - ESB Building
Cost: $500
 
RNA-Seq Workshop (non-model focus) (Bioinformatics)
Dates: December 16-17 2019, 9-5pm
Location: Storrs Campus - ESB Building
Cost: $500
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To request access to this resource, please ensure you have a CAM account or request one here: https://bioinformatics.uconn.edu/contact-us/
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access Qiagen's IPA is available!
To obtain access to this resource, contact us here: https://bioinformatics.uconn.edu/resources-and-events/ipa_registration/
 
Need full project support?  We have a rate plan for that!
The CBC is offering full project support that includes quality control, analysis, visualization, and data submission.  We offer full packages as well as customized quotes for specific bioinformatic needs.
 
More information as well as a quote can be obtained from here:
 
Need a consult?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo

CBC Newsletter November 2018

Group Data Therapy Sessions - Biweekly on Fridays at 10:30am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.
 
We will be hosting our next Data Therapy Session for Open Consultation (bring your questions!) on Friday, November 30th at 10:30am in ESB 304.  There is no meeting this week due to the Thanksgiving holiday.
 
New Server - More Cores!  Welcome to Xanadu!
If you are seeking more resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select Xanadu)
To learn how to access and interact with the Xanadu cluster, please go here:
 
ISG Networking Event - Next Week!

The Institute for Systems Genomics Networking Workshop will be held on Thursday, November 29, 2018, from 8:30AM - 2:45PM in the Wilbur Cross North Reading Room on the UConn Storrs campus.  The workshop will feature brief presentations by new members of the genomics community, as well as presentations on new technologies. Our core directors will also provide brief updates at the workshop (Center for Genome Innovation, Computational Biology Core, Single Cell Genomics Facility).  Lunch will be provided!

If you plan to attend, please register by November 20, 2018: https://isg.uconn.edu/isg_workshop/

 
Institute for Systems Genomics Seed Grants
The Institute for Systems Genomics is pleased to announce a new seed grant opportunity available to UConn faculty. This seed grant mechanism is intended to facilitate the development and submission of external grant applications by providing genomics data generated from one of the ISG core facilities: the Center for Genome Innovation (CGI), the Computational Biology Core (CBC), and the Single Cell Genomics Center (SCGC).  These funds can be used to collect pilot data based on new or commonly used technologies, purchase user time on instruments, analyze sequencing data, obtain expert consultation on novel methodological approaches/techniques, pay for sample or data processing, or to develop key partnerships with industry or foundation partners.
CBC Office Hours at UCH on Tuesdays:
Dr. Vijender Singh is available 9:30am to 5:30pm in the Cell and Genome Sciences Building (R1618).  His next office UCH office hour is Tuesday, the 27th

Announcing a data intensive Variant Detection Winter Workshop
CBC Workshops are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 12 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.
 
Variant Detection (Bioinformatics)
Dates: December 17-18 2018, 9-5pm
Location: Storrs Campus - ESB Building
Cost: $600
Registration link will be announced this month.
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To request access to this resource, please ensure you have a CAM account or request one here: https://bioinformatics.uconn.edu/contact-us/
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access Qiagen's IPA is available!
A limited offering of IPA is be sponsored by the CBC.  To obtain shared access to this resource, contact us here: https://bioinformatics.uconn.edu/resources-and-events/ipa_registration/
 
Need full project support?  We have a rate plan for that!
The CBC is offering full project support that includes quality control, analysis, visualization, and data submission.  We offer full packages as well as customized quotes for specific bioinformatic needs.
More information as well as a quote can be obtained from here:
Need a consult?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
Want help from the comfort of your office? Ping us on our Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo

CBC Newsletter August 2018

Group Data Therapy Sessions - Biweekly on Fridays at 10:30am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.
 
We will be hosting our next Data Therapy Session to provide an Introduction to Python: SAM/BAM files on Friday, August 17th at 10:30am in ESB 304.
 
New Server - More Cores!  Welcome to Xanadu!
If you are seeking more resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select Xanadu)
To learn how to access and interact with the Xanadu cluster, please go here:
 
Running on Xanadu (Recent Updates):
1.  New transfer protocol!  Set your sFTP clients to hostname: transfer.cam.uchc.edu.  If you have lots of data - use Globus!  Details on how to do this here: https://bioinformatics.uconn.edu/resources-and-events/tutorials-2/data-transfer/
2.  All the 5 himem nodes can be accessed with single partition himem.  There will be no himem1-5 partitions.  There is a new limit of  2 himem nodes per user.

3.  Users must now specify -p (or --partition) and --qos flag to access specific queue(s):

GENERAL queue example:
--partition=general
--qos=general

interactive session : srun --pty -p general --qos=general bash

HIMEM nodes
--partition=himem
--qos=himem

interactive session : srun --pty -p himem --qos=himem bash

 
Old Server (BBC users) - No access as of Fall 2018!
BBC users should be in the process of moving their data over to Xanadu.  Please contact the CBC if you need assistance.  Please clear your home directory AND minimize data residing on /tempdata3 and /archive as soon as possible.  We can help you move what you need!  BBC will be decommissioned at the end of the Summer (August 31).
 
CBC Office Hours at UCH on Tuesdays:
Dr. Vijender Singh is available 9:30am to 5:30pm in the Cell and Genome Sciences Building (R1618).
 
Welcoming a new member:
Please join us in welcoming Wolf Eily, a recent UConn MCB graduate, who has joined the team part-time to participate in training and assist users with their informatic needs!

Announcing a data intensive Variant Detection Winter Workshop
CBC Workshops are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.
 
Variant Detection (Bioinformatics)
Dates: December 17-18 2018, 9-5pm
Location: Storrs Campus - ESB Building
Cost: $600
Registration link will be announced this month.
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To request access to this resource, please ensure you have a CAM account or request one here: https://bioinformatics.uconn.edu/contact-us/
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access Qiagen's IPA is available!
A limited offering of IPA is be sponsored by the CBC.  To obtain shared access to this resource, contact us here: https://bioinformatics.uconn.edu/resources-and-events/ipa_registration/
 
Need full project support?  We have a rate plan for that!
The CBC is offering full project support that includes quality control, analysis, visualization, and data submission.  We offer full packages as well as customized quotes for specific bioinformatic needs.
More information as well as a quote can be obtained from here:
Need a consult?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
Want help from the comfort of your office? Ping us on our Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
CBC RNA-Seq Workshop - July 2018 Review
The 4th Annual CBC RNA-Seq workshop was held on the Storrs campus in July and featured three intensive sessions for analysis of model and non-model systems.  The tutorials reviewed in this workshop are available to the public with all the files used online.  Please find these here:  https://bioinformatics.uconn.edu/resources-and-events/tutorials-2/
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo

CBC Newsletter November 2017

**We've Moved!**  Find our Bioinformatics Scientists in the new ESB Building.  As always, contact us in advance to schedule an appointment.**
 
Group Data Therapy Sessions - Biweekly on Fridays at 10:30am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  
 
We will be hosting our next Data Therapy Session to provide an introduction to genome size estimation THIS Friday, November 17th at 10:30am in ESB 205.
 
 
New Server - More Cores!  Welcome to Xanadu!
If you are seeking more resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select UCH)
 
This will provide access to our new cluster Xanadu.  Xanadu utilizes Slurm rather than SGE for job management.  To learn how to access and interact with the Xanadu cluster, please go here:
 
Old Server (BBC users) - Please move your data to Xanadu!
BBC users should be in the process of moving their data over to Xanadu.  Please contact the CBC if you need assistance.  Please clear your home directory AND minimize data residing on /tempdata3 as soon as possible.  The /archive is still available for longterm data storage and will be mounted to Xanadu in the future.
 
NEW!  CBC Office Hours at UCH on Tuesdays:
Dr. Vijender Singh will be traveling to UCH on Tuesdays and will be available 9:30am to 5:30pm in the Cell and Genome Sciences Building (R1618).
 
NEW!  System Administrator for Xanadu:
Please join us in welcoming Mike Wilson to the UCH team!  He has been active in both bioinformatics research and system administration at UCH as well as Yale.  We are excited to have him join the CBC in an official capacity with half-time support for Xanadu.  He will join us officially on November 27th.

Announcing a mini ChiP-Seq Winter Workshop
CBC Workshops are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.  Registration for the following will open soon!
 
ChIP-Seq: Experimental Design and Analysis
Date: December 18th 2017 (9am-1pm)
Location: UCH Campus (Cell and Genome Sciences)
Cost: $200
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To access these licenses - please follow the instructions posted here:
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access Qiagen's IPA is coming soon!
After assessing the needs of the UConn/UCH research community, it was decided that Qiagen's IPA will offer more useful features to meet current analysis goals.  A limited offering of IPA will be sponsored by the CBC.  Approval of the license is underway with purchasing.  For those in need of more immediate access to pathway tools, a trial version of the software is accessible to researchers.
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L

CBC Newsletter September 2017

September 2017 - Updates from the ISG Computational Biology Core (CBC)
 
**We've Moved!**  Find our Bioinformatics Scientists in the new ESB Building.  As always, contact us in advance to schedule an appointment.**
 
Group Data Therapy Sessions - Biweekly on Fridays at 11:30am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.
 
We will be hosting our next Data Therapy Session to provide an introduction to shell scripting on the Xanadu cluster THIS Friday, September 8th at 11:30am in ESB 205 (new building between Pharmacy and Chemistry).  Please note the new time and location.
 
 
New Server - More Cores!  Welcome to Xanadu!
If you are seeking more resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select UCH)
 
This will provide access to our new cluster Xanadu.  Xanadu utilizes Slurm rather than SGE for job management.  To learn how to access and interact with the Xanadu cluster, please go here:
 
Old Server (BBC users) - Please move your data to Xanadu!
BBC users should be in the process of moving their data over to Xanadu.  Please contact the CBC if you need assistance.  Please clear your home directory AND data residing on /tempdata3 as soon as possible.  The /archive is still available for longterm data storage and will be mounted to Xanadu in the future.

Announcing a mini ChiP-Seq Winter Workshop
CBC Workshops are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.  Registration for the following will open soon!
 
ChIP-Seq: Experimental Design and Analysis
Date: December 18th 2017 (9-1pm)
Location: UCH Campus
Cost: $200
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To access these licenses - please follow the instructions posted here:
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access Qiagen's IPA is coming soon!
After assessing the needs of the UConn/UCH research community, it was decided that Qiagen's IPA will offer more useful features to meet current analysis goals.  A limited offering of IPA will be sponsored by the CBC.  A training session by Qiagen will be announced in the upcoming weeks.
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our new Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L

CBC Newsletter July 2017

July 2017 - Updates from the ISG Computational Biology Core (CBC)
 
Group Data Therapy Sessions - Biweekly on Fridays at 10:00am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  We generally meet in BioPharm 203 (Storrs).  
 
We will be hosting our second UCH Data Therapy Session to provide an introduction to Unix, HPC and specifically the Xanadu cluster on Friday, July 28th at 10:00am.  
 
The following session (August 11th) will focus on Python for Bioinformatics
 
New Server - More Cores!  Welcome to Xanadu!
If you are seeking more resources - memory and cores - obtain a UCH account (CAM) here: http://bioinformatics.uconn.edu/contact-us/ (select UCH)
 
This will provide access to our new cluster Xanadu.  Xanadu utilizes Slurm rather than SGE for job management.  To learn how to access and interact with the Xanadu cluster, please go here:

Announcing Winter Workshops
CBC Workshops are offered across 2-3 full days (cost: $700).  They are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.
 
ChIP-Seq: Experimental Design and Analysis
Dates: December 2017 (TBA)
Location: UCH Campus
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To access these licenses - please follow the instructions posted here:
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access GeneXPlain!
The CBC is hosting a site license for the GeneXPlain web-based platform that can be accessed here: http://genexplain.cam.uchc.edu/bioumlweb/
 
 
Login e-mail is your CAM username.
 
Note: You will need a UCH account (also known as a CAM account) to access Geneious and GeneXPlain. 
 
To obtain a UCH CAM account - go here: http://bioinformatics.uconn.edu/contact-us/ (select UCH)
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our new Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L

CBC Newsletter May 2017

May 2017 - Updates from the ISG Computational Biology Core (CBC)
 
Group Data Therapy Sessions - Biweekly on Fridays at 10:00am!
We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  We generally meet in BioPharm 203 (Storrs).  
 
We will be hosting our first UCH Data Therapy Session to provide an introduction to HPC and specifically theXanadu cluster on Friday, June 2nd at 10:00am.  
 
The following session (June 16th) will focus on Metatranscriptomics and will held at back in BioPharm 203 in Storrs.
 
Announcing Bioinformatics Summer Workshops
CBC Workshops are offered across two full days (cost: $700).  They are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use thefollowing survey to tell us about the training you or your group members need.
 
You can sign-up for two courses offered this summer:
 
RNA-Seq: Experimental Design and Analysis
Dates: July 20-21 2017, 9-5pm
Location: Beach Hall, Storrs Campus
 
ChIP-Seq: Experimental Design and Analysis
Dates: August 24-25 2017, 9-5pm
Location: Beach Hall, Storrs Campus
 
Geneious!
The CBC is now hosting five commercial floating licenses for the Geneious software package.  To access these licenses - please follow the instructions posted here:
 
To learn more about Geneious, visit: http://www.geneious.com
 
Need Pathways?  Access GeneXPlain!
The CBC is hosting a site license for the GeneXPlain web-based platform that can be accessed here: http://genexplain.cam.uchc.edu/bioumlweb/
 
 
Login e-mail is your CAM username.
 
Note: You will need a UCH account (also known as a CAM account) to access Geneious and GeneXPlain. 
 
To obtain a UCH CAM account - go here: http://bioinformatics.uconn.edu/contact-us/ (select UCH)
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on thecluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our new Slack channel.  Anyone with a uconn.edu OR a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L
 

CBC Newsletter March 2017

March 2017 - Updates from the ISG Computational Biology Core (CBC)
 
Group Data Therapy Sessions - Biweekly on Fridays!
Bring your data woes to our next session Friday, March 24th.  Our next topic is RADSeq but these will change week to week depending on group input.  We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  We currently meet in BioPharm 203.
 
Announcing Bioinformatics Summer Workshops
CBC Workshops are offered across two full days (cost: $700).  They are open to advanced undergraduates, graduate students, postdocs, and faculty.  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.
 
You can sign-up for two courses offered this summer:
 
RNA-Seq: Experimental Design and Analysis
Dates: July 20-21 2017, 9-5pm
Location: Beach Hall, Storrs Campus
 
ChIP-Seq: Experimental Design and Analysis
Dates: August 24-25 2017, 9-5pm
Location: Beach Hall, Storrs Campus
 
Where are the applications?
We host hundreds of bioinformatics applications!  These applications are hosted on two different clusters (BBC and HPC1).  To find out how to access these applications, visit our software page: http://bioinformatics.uconn.edu/software/
 
FAST searches!
The CBC is now hosting Diamond indexes in addition to NCBI BLAST.  This similarity search package can align (long or short) sequences against the indexed database of your choice - at incredible speeds!
To learn more about Diamond: https://github.com/bbuchfink/diamond
Database indexes we are supporting: http://bioinformatics.uconn.edu/databases/
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our new Slack channel.  Anyone with a uconn.edu or a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L
 

CBC Newsletter January 2017

January 2017 - Updates from the ISG Computational Biology Core (CBC)

 
Expanding the CBC Team!
Two new members have recently joined the CBC team.  Dr. Vijender Singh joined in October 2016 as our new lead bioinformatics scientist.  He comes to us with several years of experience in genomics and bioinformatics from the Center of Gene Regulation and Expression at the University of Dundee.  Dr. Neranjan Perera joined us as a Postdoctoral Scholar in December 2016.  He recently obtained his PhD in Chemistry here at UConn and trained in the CBC for one year before joining.  Both of our new members are looking forward to working with you!
 
Starting this Friday, Feb 3rd: Group Data Therapy Sessions!
We will be leading hour long sessions every other Friday at 10am.  Bring your data woes to our first session this Friday, Feb. 3rd.    We welcome beginners and advanced users to generate a productive discussion.  To get an idea of the group size (and your general interests) - we have a very quick survey.  We will reserve a room once we have an idea of how many of you need therapy.
 
Mark your Calendars!  COMPUTATIONAL BIOLOGY CORE OPEN HOUSE - FEBRUARY 24th 
9:30am - 4:30pm in the Genome and Cell Sciences Building at UCHC in Farmington.
This full day event will provide information on our new hardware capacities, software offerings/training, research talks, and details on the types of support provided by our team.  Lunch will be provided as well as shuttle transport from Storrs to UCHC.  A full schedule of events will be provided shortly!
 
Bioinformatics Summer Workshops
New CBC training workshops will be offered this summer.  These are offered as 2 or 3 full days (depending on the topic and level).  The courses will range in cost from $500-$700 and are open to undergraduates, graduate students, postdocs, and faculty.  We will be offering an RNA-Seq course this April and want to hear from you on other topics of interest!  Each class enrolls a maximum of 10 students and provides hands-on training and background for genomics data analysis.  Use the following survey to tell us about the training you or your group members need.
 
Need support?
Starting a new project or have one on the horizon?  Need a consultation, hardware access, or a piece of software installed on the cluster?  Fill out the account request/support form:
 
Want help from the comfort of your office? Ping us on our new Slack channel.  Anyone with a uconn.edu or a uchc.edu address can join #bioinformatics_help using (uconn-cbc.slack.com)
 
Upcoming proposal? 
Request a letter from the CBC, Center for Genome Innovation (CGI), and/or the new Proteomics Core:
 
Recently published a manuscript that benefited from support or hardware at the CBC?  Please tell us!
 
Keep Connected/Updated!
Follow us on Twitter @UConn_Bioinfo
 
Subscribe to the mailing list (bioinformatics-L) here: https://listserv.uconn.edu/scripts/wa.exe?A0=BIOINFORMATICS-L