Ambarish Kumar's repositories
IHIW_Management
Management application for IHIW
arcasHLA
Fast and accurate in silico inference of HLA genotypes from RNA-seq
bh20-seq-resource
Tool to upload SARS-CoV-2 sequences to BH20 Arvados instance and orchestrate analysis
bh20-workflows-bhxiv
Workflows topic group BioHackathon 2020 mini-publication for https://BioHackrXiv.org
bio-cipres
Phylogenomic analysis on the CIPRES REST portal
Converters
hml and haml converter repo
covid-gene-expression
Hackathon team: gene expression analysis for Covid-19
cwl-workflow-SARS-CoV-2
CWL workflows related to virus genomics with focus on SARS-CoV-2
DASH10
Data Standards Hackathon 10
galaxy2cwl
Standalone version tool to get cwl descriptions (initially an abstract cwl interface) of galaxy workflows and Galaxy workflows executions.
GENIE3
Machine learning-based approach for the inference of gene regulatory networks from expression data.
hml-validation-portal
Portal for HML validation
My_HW1_DeepLearning
Test Repo for Deep Learning HW
Neo-antigen-prediction
Computational Prediction of Neoantigens.
NeoPredPipe
Neoantigens prediction pipeline for multi- or single-region vcf files using ANNOVAR and netMHCpan.
pangolin
Resources for a lineage naming scheme for SARS-CoV-2/hCoV-2019
sars-cov-3
SARS-CoV-2 (Severe acute respiratory syndrome coronavirus 2) sequences and features
serratus
Ultra-deep Coronavirus Homology Search
VGpop
Selection scans on VG
viral-analysis
Workflows for viral analysis (as part of COVID-19 Biohackathon)
viralrecon
UNDER CONSTRUCTION: Assembly and intrahost/low-frequency variant calling for viral samples