Alternatives and similar repositories for variantbenchmarking

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

• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆97Updated last week
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆55Updated last year
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆76Updated last month
• nf-core / isoseq
  Genome annotation with PacBio Iso-Seq. Takes raw subreads as input, generate Full Length Non Chemiric (FLNC) sequences and produce a bed …
  ☆50Updated last month
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆81Updated 10 months ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆70Updated last week
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆57Updated last week
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆70Updated last week
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆78Updated 2 weeks ago
• deepomicslab / SpecHLA
  SpecHLA reconstructs entire diploid sequences of HLA genes and infers LOH events. It supports HLA-A, -B, -C, -DPA1, -DPB1, -DQA1, -DQB1, …
  ☆51Updated 2 months ago
• vicsanga / Postre
  POSTRE: Prediction Of STRuctural variant Effects
  ☆28Updated 10 months ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆56Updated 2 years ago
• nf-core / rnavar
  gatk4 RNA variant calling pipeline
  ☆56Updated last week
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆36Updated 5 months ago
• ygidtu / trackplot
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆99Updated 3 weeks ago
• zd1 / telseq
  A software for calculating telomere length
  ☆72Updated 7 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆99Updated last year
• nextflow-io / nf-validation
  Params validation plugin for Nextflow pipelines
  ☆48Updated last year
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆64Updated 7 months ago
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆40Updated last year
• nf-core / hlatyping
  Precision HLA typing from next-generation sequencing data
  ☆75Updated last week
• genepi / haplocheck
  Phylogeny-based Contamination Detection in Mitochondrial and Whole-Genome Sequencing Studies
  ☆18Updated 2 years ago
• christopher-vollmers / Mandalorion
  Pipeline to identify isoforms from full-length cDNA sequencing data
  ☆26Updated 2 months ago
• nf-core / vscode-extensionpack
  A VSCode extension pack for nf-core developers.
  ☆15Updated 9 months ago
• pachterlab / splitcode
  Flexible and efficient parsing, interpreting and editing of sequencing reads
  ☆44Updated 2 weeks ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• EI-CoreBioinformatics / portcullis
  Splice junction analysis and filtering from BAM files
  ☆42Updated 3 years ago