Pinned Repositories
psga-pipeline-sars-cov-2
Repository for Pathogen Sequence Genome Analysis Sars CoV 2 pipeline
Perl-HTS
Perl XS wrapper for htslib
maxentscan
Maxentscan: Splice site scoring http://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html
ncov2019-artic-nf
A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
psga-reusable-workflows
PSGA shared and reusable GitHub Action workflows
msisensor2
Microsatellite instability (MSI) detection for tumor only data.
bpipe
pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
openlava-drmaa
DRMAA library for Openlava
Alien-LibBigWig
Alien build script for libBigWig
Congenica's Repositories
Congenica/psga-reusable-workflows
PSGA shared and reusable GitHub Action workflows
Congenica/psga-pipeline-sars-cov-2
Repository for Pathogen Sequence Genome Analysis Sars CoV 2 pipeline
Congenica/msisensor2
Microsatellite instability (MSI) detection for tumor only data.
Congenica/ncov2019-artic-nf
A Nextflow pipeline for running the ARTIC network's fieldbioinformatics tools (https://github.com/artic-network/fieldbioinformatics), with a focus on ncov2019
Congenica/pysam
Pysam is a Python module for reading and manipulating SAM/BAM/VCF/BCF files. It's a lightweight wrapper of the htslib C-API, the same one that powers samtools, bcftools, and tabix.
Congenica/panogram
Congenica/Genoverse
HTML5 scrollable genome browser
Congenica/clinvar
This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file.
Congenica/cyvcf
A fast Python library for VCF files leveraging Cython for speed.
Congenica/Alien-LibBigWig
Alien build script for libBigWig
Congenica/cfncluster-cookbook
The Chef cookbook used to build and bootstrap CfnCluster
Congenica/Bio-DB-HTS
Git repo for Bio::DB::HTS module on CPAN, providing Perl links into HTSlib
Congenica/CFseq
CFseq pipeline
Congenica/Perl-HTS
Perl XS wrapper for htslib
Congenica/openlava-python
Python bindings for openlava
Congenica/openlava-drmaa
DRMAA library for Openlava
Congenica/maxentscan
Maxentscan: Splice site scoring http://genes.mit.edu/burgelab/maxent/Xmaxentscan_scoreseq.html
Congenica/bpipe
Congenica/denovogear
A program to detect denovo-variants using next-generation sequencing data. (http://www.nature.com/nmeth/journal/v10/n10/full/nmeth.2611.html)
Congenica/prototype.node.js
Prototype.js implemented in Node.js