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IISc-HMS Worshop on “Diploid assemblies and phenotype interpretation on cloud”

Fri, 20 Dec 19 -- Sat, 21 Dec 19

Diploid assemblies and phenotype interpretation on cloud

We are pleased to announce the first ever diploid assemblies and phenotype interpretation workshop/hackathon on the cloud.

On Dec 20, 2019, this bioinformatics workshop will be run at the Department of Computational and Data Sciences, Indian Institute of Sciences, co-hosted by Harvard Medical School (HMS). Optionally, it may be extended to Dec 21, based on participant enthusiasm. Topics include:

  • Building haplotype-resolved graphs from various regions in human genomes, including medically relevant ones such as MHC/KIR
  • Haplotype-resolved Structural Variant (SV) calling
  • Interpreting missense mutation
  • Using protein structure and dynamics to interpret phenotype change on mutation

We’re specifically looking for people who have experience in working with graph algorithms, massive datasets, graph alignment, genome tertiary analysis and molecular dynamics. This event is for researchers, including students, postdocs and faculty, who are already engaged in the use of bioinformatics data.


You will form working groups of five to six individuals at the workshop. These teams will build pipelines to analyze large datasets within a cloud platform.


All pipelines and other scripts, software, and programs generated in the hackathon portion of the workshop will be added to a public GitHub repository designed for that purpose. Manuscripts describing the design and usage of the software tools constructed by each team may be submitted to an appropriate journal such as the F1000Research hackathons channel, BMC Bioinformatics, GigaScience, Genome Research or PLoS Computational Biology.


To apply, please complete this FORM (click the link; approximately 5 minutes to complete).

There is still room for additional participants to join. So the registration is still open until Dec 20, 2019 9:00 AM before the workshop starts or till we fill up the vacant slots. If you confirm, please make sure it is highly likely you can attend.

There is a small registration fee (Rs. 750).

Note: Participants will need to bring their own laptop to this program. A working knowledge of scripting (e.g., Shell, Python, R) is useful but not necessary. Experience with higher level scripting or programming languages may also be useful.

For more information, or with any questions, please send an email to: iisc.hms.workshop@gmail.com.


Shilpa Garg (NIH K99 Research Fellow, Harvard Medical School, Boston)

Debnath Pal (Professor, Department of Computational and Data Sciences, Indian Institute of Science, Bengaluru)



Fri, 20 Dec 19
Sat, 21 Dec 19
Event Categories:


Debnath Pal


CADLAB, Department of Computational and Data Sciences, IISc
Bangalore, Karnataka 560012 India
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