Alternatives and similar repositories for PyVCF

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

• Clinical-Genomics / chanjo
  Chanjo provides a better way to analyze coverage data in clinical sequencing.
  ☆51Updated 8 months ago
• mgymrek / pybamview
  Browser based application for viewing bam alignments
  ☆56Updated 8 years ago
• lh3 / fermikit
  De novo assembly based variant calling pipeline for Illumina short reads
  ☆108Updated 4 years ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆72Updated 9 years ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• mdshw5 / fastqp
  Simple FASTQ quality assessment using Python
  ☆109Updated 4 years ago
• gogetdata / ggd-recipes
  conda recipes for genomic data
  ☆85Updated 4 years ago
• Clinical-Genomics / genmod
  Annotate models of genetic inheritance patterns in variant files (vcf files)
  ☆82Updated 2 weeks ago
• ngsutils / ngsutils
  Tools for next-generation sequencing analysis
  ☆89Updated 6 years ago
• Cibiv / Teaser
  A tool to benchmark mappers and different parameters within minutes
  ☆44Updated 6 years ago
• andyrimmer / Platypus
  Platypus Variant Caller
  ☆108Updated last year
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• GenomiqueENS / dockerfiles
  ☆82Updated 3 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• schatzlab / appliedgenomics2017
  JHU EN.600.649: Computational Genomics: Applied Comparative Genomics
  ☆58Updated 7 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆63Updated 7 years ago
• lh3 / fermi-lite
  Standalone C library for assembling Illumina short reads in small regions
  ☆72Updated 2 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆47Updated 6 months ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 4 years ago
• NCBI-Hackathons / Community_Software_Tools_for_NGS
  ☆62Updated 8 years ago
• mitenjain / nanopore
  UCSC Nanopore group's software pipeline for reference-based sequence analysis
  ☆55Updated 9 years ago
• CGATOxford / cgat
  Do not use - please refer to our newest code: https://github.com/cgat-developers/cgat-apps
  ☆124Updated 6 years ago
• brwnj / bcl2fastq
  NextSeq specific bcl2fastq2 wrapper.
  ☆55Updated 4 years ago
• bioinform / varsim
  VarSim: A high-fidelity simulation validation framework for high-throughput genome sequencing with cancer applications
  ☆87Updated 10 months ago
• lpryszcz / bin
  My bioinfo toolbox
  ☆50Updated 6 months ago
• fls-bioinformatics-core / genomics
  Scripts, utilities and programs for genomic bioinformatics.
  ☆83Updated 2 months ago
• arq5x / cyvcf
  A fast Python library for VCF files leveraging Cython for speed.
  ☆52Updated 7 years ago
• KHP-Informatics / ngseasy
  Dockerised Next Generation Sequencing Pipeline (QC, Align, Calling, Annotation)
  ☆86Updated 8 years ago
• IARCbioinfo / needlestack
  Multi-sample somatic variant caller
  ☆52Updated 3 years ago
• aryeelab / umi
  Preprocessing tools for unique molecular index (UMI) sequencing reads
  ☆31Updated 2 years ago