Alternatives and similar repositories for variantbenchmarking

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

• adnaniazi / tailfindr
  An R package for estimating poly(A)-tail lengths in Oxford Nanopore RNA and DNA reads.
  ☆54Updated last year
• huangnengCSU / longcallR
  LongcallR is a SNP caller for single molecule long-read RNA-seq data
  ☆69Updated 2 months ago
• fakedrtom / SVAFotate
  ☆44Updated last year
• HKU-BAL / ClairS-TO
  ClairS-TO - a deep-learning method for tumor-only somatic variant calling
  ☆72Updated this week
• a-slide / NanoCount
  EM based transcript abundance from nanopore reads mapped to a transcriptome with minimap2
  ☆64Updated last year
• nf-core / oncoanalyser
  A comprehensive cancer DNA/RNA analysis and reporting pipeline
  ☆93Updated this week
• TrinityCTAT / CTAT-LR-fusion
  fusion transcript detection using long reads, leveraging ctat-minimap2 and FusionInspector
  ☆22Updated last month
• Clinical-Genomics / BALSAMIC
  Bioinformatic Analysis pipeLine for SomAtic Mutations In Cancer
  ☆55Updated this week
• bioinfo-chru-strasbourg / vcf2circos
  python plotly Circos from VCF
  ☆40Updated last year
• fulcrumgenomics / fqtk
  Fast FASTQ sample demultiplexing in Rust.
  ☆66Updated this week
• nf-core / vscode-extensionpack
  A VSCode extension pack for nf-core developers.
  ☆15Updated 8 months ago
• srbehera / DRAGEN_Analysis
  ☆36Updated last year
• KolmogorovLab / minda
  ☆25Updated 7 months ago
• nf-core / scnanoseq
  Single-cell/nuclei pipeline for data derived from Oxford Nanopore and 10X Genomics
  ☆50Updated last month
• vicsanga / Postre
  POSTRE: Prediction Of STRuctural variant Effects
  ☆28Updated 8 months ago
• pachterlab / splitcode
  Flexible and efficient parsing, interpreting and editing of sequencing reads
  ☆44Updated 3 weeks ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 9 months ago
• lh3 / ref-gen
  Human reference genome analysis sets
  ☆56Updated 2 years 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…
  ☆97Updated this week
• 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 …
  ☆48Updated 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 last month
• mortazavilab / swan_vis
  A Python library to visualize and analyze long-read transcriptomes
  ☆63Updated 6 months ago
• zavolanlab / zarp
  The Zavolab Automated RNA-seq Pipeline
  ☆35Updated 3 months ago
• hms-dbmi / chromoscope
  Interactive multiscale visualization for structural variation in human genomes
  ☆70Updated last week
• SciLifeLab / TIDDIT
  TIDDIT - structural variant calling
  ☆77Updated 7 months ago
• shimlab / BLAZE
  SingleCell Nanopore sequencing data analysis
  ☆61Updated 5 months ago
• nspies / svviz2
  for visual evaluation of read support for structural variation
  ☆55Updated last year
• genepi / cloudgene3
  A framework to build Software As A Service (SaaS) platforms for Nextflow pipelines.
  ☆16Updated 2 months ago
• tao-bioinfo / gff3sort
  GFF3sort: A Perl Script to sort gff3 files and produce suitable results for tabix tools
  ☆51Updated 5 years ago
• genomic-medicine-sweden / nallo
  An analysis pipeline for long-reads from both PacBio and Oxford Nanopore Technologies (ONT), written in Nextflow.
  ☆37Updated last week