irinastl

irinastl's Stars

• jupyter/jupyter

  Jupyter metapackage for installation, docs and chat

  Language:Python14.9k6224054.1k

• MultiQC/MultiQC

  Aggregate results from bioinformatics analyses across many samples into a single report.

  Language:JavaScript1.2k351.6k599

• samtools/hts-specs

  Specifications of SAM/BAM and related high-throughput sequencing file formats

  Language:TeX648100430174

• igvteam/igv.js

  Embeddable genomic visualization component based on the Integrative Genomics Viewer

  Language:HTML641351.2k229

• Illumina/hap.py

  Haplotype VCF comparison tools

  Language:C++40941174124

• Illumina/SpliceAI

  A deep learning-based tool to identify splice variants

  Language:Python40621138158

• ncbi/datasets

  NCBI Datasets is a new resource that lets you easily gather data from across NCBI databases.

  Language:Jupyter Notebook3622719639

• TransDecoder/TransDecoder

  TransDecoder source

  Language:Perl2701719159

• ga4gh/benchmarking-tools

  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls

  Language:HTML188531646

• PASApipeline/PASApipeline

  PASA software

  Language:Perl1741330458

• biopython/biopython.github.io

  Source of biopython.org website, migrated from MediaWiki

  Language:CSS1532688283

• mhahsler/rBLAST

  Interface for the Basic Local Alignment Search Tool (BLAST) - R-Package

  Language:R10533322

• MikkelSchubert/adapterremoval

  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging

  Language:C++10475823

• ga4gh/vrs

  Extensible specification for representing and uniquely identifying biological sequence variation

  Language:Jupyter Notebook802933832

• CDCgov/phoenix

  🔥🐦🔥PHoeNIx: A short-read pipeline for healthcare-associated and antimicrobial resistant pathogens

  Language:Python5675819

• monarch-initiative/SEPIO-ontology

  Ontology for representing scientific evidence and provenance information

  Language:Makefile50283811

• klebgenomics/Kaptive

  Language:Python43102721

• theiagen/public_health_bioinformatics

  Bioinformatics workflows for genomic characterization, submission preparation, and genomic epidemiology of pathogens of public health concern.

  Language:WDL37631917

• samtools/htscodecs

  Custom compression for CRAM and others.

  Language:C27131618

• ClinGen/clincoded

  This GCI/VCI 1.0 platform has now been retired, and replaced with our new 2.0 platform:

  Language:JavaScript25151.7k9

• UPHL-BioNGS/Grandeur

  UPHL's Reference Free Pipeline

  Language:Nextflow2541647

• ImperialCardioGenetics/frequencyFilter

  Allele frequency filtering for Mendelian variant discovery

  Language:R17308

• BryantD/microtrace

  Microblogging bot for tracery grammars.

  Language:Python16303

• marcoralab/MRcovid

  Language:HTML11414

• ijmiller2/COVID-19_Multi-Omics

  A repository for collaborative multi-omics data analysis & the covid-omics.app

  Language:Jupyter Notebook96126

• covid19-hg/README

  COVID-19 Host Genetics Initiative - analysis readme

  50

• ClinGen/gene-and-variant-curation-tools

  ClinGen's gene and variant curation interfaces (GCI & VCI). Developed by Stanford ClinGen team.

  Language:JavaScript372581

• CIBERER/Scourge-COVID19

  Language:R210

• marcoralab/multivariate_MR

  1

• mjpirinen/covid19-hgi_subtypes

  Language:HTML10