Alternatives and similar repositories for gene_lists

Users that are interested in gene_lists are comparing it to the libraries listed below

• konradjk / loftee
  ☆189Updated 2 years ago
• davidaknowles / leafcutter
  Annotation-free quantification of RNA splicing. Yang I. Li, David A. Knowles, Jack Humphrey, Alvaro N. Barbeira, Scott P. Dickinson, Hae …
  ☆229Updated last year
• freeseek / gtc2vcf
  Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL/CHP files to VCF
  ☆162Updated 5 months ago
• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆165Updated 3 years ago
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆328Updated 10 months ago
• macarthur-lab / clinvar
  This repo provides tools to convert ClinVar data into a tab-delimited flat file, and also provides that resulting tab-delimited flat file…
  ☆131Updated 5 years ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆129Updated 5 years ago
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆245Updated 3 years ago
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆231Updated 8 months ago
• molgenis / systemsgenetics
  Generic Java genotype reader / writer, QTL mapping software, Strand alignment tool
  ☆179Updated 2 weeks ago
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆394Updated 4 months ago
• kundajelab / chipseq_pipeline
  AQUAS TF and histone ChIP-seq pipeline
  ☆112Updated 3 years ago
• broadinstitute / ichorCNA
  Estimating tumor fraction in cell-free DNA from ultra-low-pass whole genome sequencing.
  ☆198Updated last year
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆219Updated 2 months ago
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆138Updated 5 years ago
• bedops / bedops
  BEDOPS: high-performance genomic feature operations
  ☆359Updated 9 months ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆409Updated 6 months ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆247Updated last year
• WGLab / doc-ANNOVAR
  Documentation for the ANNOVAR software
  ☆245Updated 6 months ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆323Updated 4 years ago
• CRG-CNAG / CalliNGS-NF
  GATK RNA-Seq Variant Calling in Nextflow
  ☆138Updated 3 years ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆268Updated 2 years ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆262Updated 2 years ago
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆248Updated 4 months ago
• sigven / pcgr
  Personal Cancer Genome Reporter (PCGR)
  ☆274Updated 4 months ago
• WGLab / InterVar
  A bioinformatics software tool for clinical interpretation of genetic variants by the 2015 ACMG-AMP guideline
  ☆206Updated 2 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated 2 years ago
• statgen / pheweb
  A tool to build a website to browse hundreds or thousands of GWAS.
  ☆191Updated 5 months ago
• ENCODE-DCC / kentUtils
  UCSC command line bioinformatic utilities
  ☆188Updated last year
• zwdzwd / transvar
  TransVar - multiway annotator for precision medicine
  ☆126Updated 2 years ago