Alternatives and similar repositories for pytabix

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

• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 3 years ago
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆79Updated 5 months ago
• lh3 / bedtk
  A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)
  ☆140Updated 3 weeks ago
• bioinformatics-centre / BayesTyper
  A method for variant graph genotyping based on exact alignment of k-mers
  ☆87Updated 6 years ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆79Updated last year
• arq5x / cyvcf
  A fast Python library for VCF files leveraging Cython for speed.
  ☆52Updated 7 years ago
• pmelsted / pizzly
  Fast fusion detection using kallisto
  ☆80Updated 2 weeks ago
• raphael-group / hatchet
  HATCHet (Holistic Allele-specific Tumor Copy-number Heterogeneity) is an algorithm that infers allele and clone-specific CNAs and WGDs jo…
  ☆69Updated 4 months ago
• GooglingTheCancerGenome / sv-callers
  Snakemake-based workflow for detecting structural variants in genomic data
  ☆80Updated 4 months ago
• ncbi / BAMscale
  BAMscale is a one-step tool for either 1) quantifying and normalizing the coverage of peaks or 2) generated scaled BigWig files for easy …
  ☆69Updated 6 months ago
• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆84Updated 7 years ago
• brentp / rare-disease-wf
  (WIP) best-practices workflow for rare disease
  ☆60Updated 11 months ago
• seppinho / mutserve
  mtDNA Variant Caller
  ☆34Updated 6 months ago
• brentp / jigv
  igv.js standalone page generator and automatic configuration to view bam/cram/vcf/bed. "working in under 1 minute"
  ☆127Updated last year
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆115Updated 11 months ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• tk2 / RetroSeq
  RetroSeq is a bioinformatics tool that searches for mobile element insertions from aligned reads in a BAM file and a library of reference…
  ☆66Updated 2 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.
  ☆49Updated 6 years ago
• mozack / abra
  Assembly Based ReAligner
  ☆74Updated 7 years ago
• CGATOxford / CGATPipelines
  Collection of CGAT NGS Pipelines
  ☆43Updated 6 years ago
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 6 years ago
• kcleal / dysgu
  Toolkit for calling structural variants using short or long reads
  ☆105Updated last week
• Clinical-Genomics / MIP
  Mutation Identification Pipeline. Read the latest documentation:
  ☆44Updated last year
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• dpryan79 / MethylDackel
  A (mostly) universal methylation extractor for BS-seq experiments.
  ☆171Updated last year
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆56Updated 7 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆59Updated 8 months ago
• ekg / fastahack
  utilities for indexing and sequence extraction from FASTA files
  ☆59Updated 4 years ago
• cancerit / ascatNgs
  Somatic copy number analysis using WGS paired end wholegenome sequencing
  ☆72Updated 4 years ago