Alternatives and similar repositories for checkVCF:

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

• biocore-ntnu / snpflip
  Report reverse and ambiguous strand SNPs in GWAS data
  ☆32Updated 5 years ago
• statgen / gotcloud
  Genomes on the Cloud, Mapping & Variant Calling Pipelines
  ☆33Updated 7 years ago
• mhguo1 / TRAPD
  Burden testing against public controls
  ☆50Updated last year
• mskcc / mutation-signatures
  Create mutation signatures from MAF's, and decompose them into Stratton signatures
  ☆60Updated 5 years ago
• macarthur-lab / igv_utils
  utilities for working with IGV: opening files remotely in either desktop IGV or a web viewer (igv.js), creating screenshots, etc.
  ☆48Updated 5 years ago
• gatk-workflows / gatk4-exome-analysis-pipeline
  This WDL pipeline implements data pre-processing and initial variant calling according to the GATK Best Practices for germline SNP and In…
  ☆52Updated 4 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• stevekm / Bioinformatics
  Bioinformatics analysis scripts, workflows, general code examples
  ☆53Updated 4 years ago
• freeseek / gwaspipeline
  ☆40Updated 7 years ago
• fhormoz / caviar
  ☆57Updated 3 years ago
• eQTL-Catalogue / qtlmap
  Portable eQTL analysis and statistical fine mapping workflow used by the eQTL Catalogue
  ☆46Updated 3 weeks ago
• parklab / ShatterSeek
  ☆67Updated last year
• cancerit / cgpBattenberg
  Battenberg algorithm and associated implementation script
  ☆52Updated 4 years ago
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆97Updated 3 years ago
• sritchie73 / liftOverPlink
  A wrapper for liftOver for converting plink genotype data between different genome reference builds
  ☆49Updated 6 years ago
• PubuduSaneth / cnvScan
  CNV screening and annotation tool
  ☆24Updated 8 years ago
• francois-a / fastqtl
  Enhanced version of the FastQTL QTL mapper
  ☆62Updated last year
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated 4 months ago
• taylor-lab / hotspots
  Identifying recurrent mutations in cancer
  ☆37Updated 4 years ago
• gabraham / plink2R
  Read PLINK BED/BIM/FAM files into R
  ☆40Updated 3 years ago
• chrisamiller / readDepth
  R package for inferring copy number from read depth
  ☆32Updated 2 years ago
• broadinstitute / oncotator
  ☆68Updated 2 years ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆41Updated 9 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• hbc / bcbioRNASeq
  R package for bcbio RNA-seq analysis.
  ☆61Updated 6 months ago
• saralpulit / gwas-scripts
  A repository containing various scripts useful for performing quality control on data from genome-wide association studies and visualizin…
  ☆20Updated 7 years ago
• gagneurlab / OUTRIDER
  OUTRIDER: OUTlier in RNA-seq fInDER is an R-based framework to find aberrantly expressed genes in RNA-seq data
  ☆49Updated last week
• UW-GAC / analysis_pipeline
  TOPMed analysis pipeline
  ☆52Updated last year
• SciLifeLab / NGI-RNAseq
  Nextflow RNA-Seq Best Practice analysis pipeline, used at the SciLifeLab National Genomics Infrastructure.
  ☆51Updated 6 years ago
• rgcgithub / clamms
  CLAMMS is a scalable tool for detecting common and rare copy number variants from whole-exome sequencing data.
  ☆29Updated 4 years ago