Alternatives and similar repositories for gene_lists:

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

• konradjk / loftee
  ☆174Updated last year
• 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…
  ☆122Updated 5 years ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆207Updated last month
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆220Updated last week
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆316Updated last week
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆250Updated last year
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆358Updated last month
• brentp / vcfanno
  annotate a VCF with other VCFs/BEDs/tabixed files
  ☆371Updated last year
• ryanlayer / samplot
  Plot structural variant signals from many BAMs and CRAMs
  ☆540Updated 8 months ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆124Updated 4 years ago
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆197Updated this week
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆196Updated last year
• saketkc / pysradb
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆325Updated last month
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆240Updated 2 years ago
• comprna / SUPPA
  SUPPA: Fast quantification of splicing and differential splicing
  ☆272Updated 9 months ago
• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆165Updated 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 …
  ☆212Updated 9 months ago
• freeseek / gtc2vcf
  Tools to convert Illumina IDAT/BPM/EGT/GTC and Affymetrix CEL/CHP files to VCF
  ☆146Updated last month
• WGLab / doc-ANNOVAR
  Documentation for the ANNOVAR software
  ☆240Updated 3 weeks ago
• dkoboldt / varscan
  Variant calling and somatic mutation/CNV detection for next-generation sequencing data
  ☆156Updated last year
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆136Updated 4 years ago
• Ensembl / VEP_plugins
  Plugins for the Ensembl Variant Effect Predictor (VEP)
  ☆144Updated this week
• pcingola / SnpEff
  ☆265Updated last month
• AstraZeneca-NGS / VarDict
  VarDict
  ☆194Updated last year
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• Magdoll / cDNA_Cupcake
  Miscellaneous collection of Python and R scripts for processing Iso-Seq data
  ☆265Updated last year
• ga4gh / benchmarking-tools
  Repository for the GA4GH Benchmarking Team work developing standardized benchmarking methods for germline small variant calls
  ☆201Updated 4 years ago
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆295Updated 3 years ago
• PapenfussLab / gridss
  GRIDSS: the Genomic Rearrangement IDentification Software Suite
  ☆267Updated last year
• pyranges / pyranges
  Performant Pythonic GenomicRanges
  ☆461Updated last week