Alternatives and similar repositories for gene_lists

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

• konradjk / loftee
  ☆185Updated 2 years ago
• dpryan79 / ChromosomeMappings
  This repository contains chromosome/contig name mappings between UCSC <-> Ensembl <-> Gencode for a variety of genomes.
  ☆245Updated 3 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 …
  ☆226Updated last year
• kundajelab / atac_dnase_pipelines
  ATAC-seq and DNase-seq processing pipeline
  ☆166Updated 3 years ago
• igordot / genomics
  A collection of scripts and notes related to genomics and bioinformatics
  ☆217Updated last month
• bli25 / RSEM_tutorial
  A short tutorial on how to use RSEM
  ☆139Updated 5 years ago
• ENCODE-DCC / chip-seq-pipeline
  ENCODE Uniform processing pipeline for ChIP-seq
  ☆123Updated 5 years ago
• broadinstitute / gtex-pipeline
  GTEx & TOPMed data production and analysis pipelines
  ☆390Updated 2 months ago
• mskcc / vcf2maf
  Convert a VCF into a MAF, where each variant is annotated to only one of all possible gene isoforms
  ☆403Updated 4 months ago
• im3sanger / dndscv
  dN/dS methods to quantify selection in cancer and somatic evolution
  ☆229Updated 6 months ago
• shenlab-sinai / ngsplot
  Quick mining and visualization of NGS data by integrating genomic databases
  ☆268Updated 2 years ago
• FRED-2 / OptiType
  Precision HLA typing from next-generation sequencing data
  ☆205Updated last year
• kundajelab / chipseq_pipeline
  AQUAS TF and histone ChIP-seq pipeline
  ☆111Updated 3 years ago
• molgenis / systemsgenetics
  Generic Java genotype reader / writer, QTL mapping software, Strand alignment tool
  ☆176Updated last year
• bioinform / somaticseq
  An ensemble approach to accurately detect somatic mutations using SomaticSeq
  ☆201Updated 4 months ago
• sigven / pcgr
  Personal Cancer Genome Reporter (PCGR)
  ☆273Updated 2 months ago
• adamewing / bamsurgeon
  tools for adding mutations to existing .bam files, used for testing mutation callers
  ☆247Updated last year
• rvalieris / parallel-fastq-dump
  parallel fastq-dump wrapper
  ☆300Updated 2 years ago
• daler / pybedtools
  Python wrapper -- and more -- for BEDTools (bioinformatics tools for "genome arithmetic")
  ☆328Updated 8 months ago
• suhrig / arriba
  Fast and accurate gene fusion detection from RNA-Seq data
  ☆253Updated 2 months ago
• snakemake-workflows / dna-seq-gatk-variant-calling
  This Snakemake pipeline implements the GATK best-practices workflow
  ☆261Updated 2 years ago
• AstraZeneca-NGS / VarDict
  VarDict
  ☆201Updated last year
• nboley / idr
  IDR
  ☆174Updated 7 years ago
• jsh58 / Genrich
  Detecting sites of genomic enrichment
  ☆197Updated 2 years ago
• simon-anders / htseq
  HTSeq is a Python library to facilitate processing and analysis of data from high-throughput sequencing (HTS) experiments.
  ☆128Updated 5 years ago
• Boyle-Lab / Blacklist
  Application for making ENCODE Blacklists
  ☆329Updated 4 years 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…
  ☆128Updated 5 years ago
• STAR-Fusion / STAR-Fusion
  STAR-Fusion codebase
  ☆246Updated 2 months ago
• Hoohm / dropSeqPipe
  A SingleCell RNASeq pre-processing snakemake workflow
  ☆148Updated 2 years ago
• genome / bam-readcount
  Count bases in BAM/CRAM files
  ☆320Updated 3 years ago