Alternatives and similar repositories for open-cravat

Users that are interested in open-cravat are comparing it to the libraries listed below

• imgag / ClinCNV
  Detection of copy number changes in Germline/Trio/Somatic contexts in NGS data
  ☆91Updated 2 months ago
• gatk-workflows / seq-format-conversion
  Workflows for converting between sequence data formats
  ☆39Updated 4 years ago
• brentp / bwa-meth
  fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome
  ☆153Updated 4 months ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆117Updated last year
• freeseek / mocha
  MOsaic CHromosomal Alterations (MoChA) caller
  ☆89Updated 3 months ago
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆97Updated this week
• CCDG / Pipeline-Standardization
  ☆82Updated 7 years ago
• geocarvalho / sv-cnv-studies
  Relevant papers for CNV and SV approaches
  ☆94Updated last year
• parklab / NGSCheckMate
  Software program for checking sample matching for NGS data
  ☆136Updated last year
• kircherlab / CADD-scripts
  CADD scripts release for offline scoring. For more information about CADD, please visit our website
  ☆88Updated last month
• Clinical-Genomics / genmod
  Annotate models of genetic inheritance patterns in variant files (vcf files)
  ☆84Updated 3 months ago
• sbslee / pypgx
  A Python package for pharmacogenomics (PGx) research
  ☆81Updated 3 weeks ago
• cbg-ethz / NGS-pipe
  NGS-pipe: next-generation sequencing pipelines for precision oncology
  ☆114Updated 6 years ago
• liguowang / CrossMap
  CrossMap is a python program to lift over genome coordinates from one genome version to another.
  ☆89Updated last month
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆154Updated 3 years ago
• cancerit / BRASS
  Breakpoints via assembly - Identifies breaks and attempts to assemble rearrangements in whole genome sequencing data.
  ☆57Updated last year
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 9 months ago
• Oshlack / JAFFA
  JAFFA is a multi-step pipeline that takes either raw RNA-Seq reads, or pre-assembled transcripts, then searches for gene fusions
  ☆103Updated 2 weeks ago
• ding-lab / CharGer
  Characterization of Germline variants
  ☆98Updated 3 years ago
• BoevaLab / FREEC
  Control-FREEC: Copy number and genotype annotation in whole genome and whole exome sequencing data
  ☆173Updated last year
• lima1 / PureCN
  Copy number calling and variant classification using targeted short read sequencing
  ☆140Updated 3 months ago
• 0xTCG / aldy
  Allelic decomposition and exact genotyping of highly polymorphic and structurally variant genes
  ☆65Updated last month
• ewels / AWS-iGenomes
  Documentation and description of AWS iGenomes S3 resource.
  ☆118Updated last year
• genepi / nf-gwas
  A nextflow pipeline to perform state-of-the-art genome-wide association studies.
  ☆76Updated 2 months ago
• bahlolab / bioinfotools
  Documenting usage and experience with bioinformatic tools
  ☆40Updated 10 years ago
• griffithlab / regtools
  Integrate DNA-seq and RNA-seq data to identify mutations that are associated with regulatory effects on gene expression.
  ☆133Updated last year
• gavinha / TitanCNA
  Analysis of subclonal copy number alterations (CNA) and loss of heterozygosity (LOH) in cancer
  ☆98Updated 4 years ago
• IARCbioinfo / BAM-tricks
  Tip and tricks for BAM files
  ☆86Updated 7 years ago
• zstephens / neat-genreads
  NEAT read simulation tools
  ☆101Updated 3 years ago
• freeseek / score
  Tools to work with GWAS-VCF summary statistics files
  ☆126Updated 3 months ago