Alternatives and similar repositories for popvcf

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

• ChaissonLab / hmcnc
  Hidden Markov Model based Copy number caller
  ☆20Updated last year
• myriad-opensource / samwell
  Samwell: a python package for using genomic files... well
  ☆20Updated 3 years ago
• dnanexus / IndexTools
  IndexTools is a toolkit for extremely fast NGS analysis based on index files.
  ☆17Updated 3 years ago
• mskilab-org / pgv
  Pan gGnome Viewer
  ☆10Updated 4 months ago
• mebbert / Dark_and_Camouflaged_genes
  ☆24Updated 6 months ago
• Kingsford-Group / variantstore
  VariantStore: A Large-Scale Genomic Variant Search Index
  ☆38Updated 4 years ago
• mklarqvist / djinn
  C++ library for analysing and storing large-scale cohorts of sequence variant data
  ☆17Updated 6 years ago
• brentp / tnsv
  add true-negative SVs from a population callset to a truth-set.
  ☆15Updated 3 years ago
• ptrebert / project-diploid-assembly
  Pipeline code for creating a fully haplotype-resolved assembly from a combination of PacBio/ONT long reads and Illumina Strand-seq data
  ☆16Updated last year
• jts / bri
  Bam Read Index - Extract alignments from a bam file by readname
  ☆28Updated last year
• jts / mbtools
  ☆14Updated 2 years ago
• langmead-lab / vargas
  ☆24Updated 2 months ago
• langmead-lab / reference_flow
  Reducing reference bias using multiple population reference genomes
  ☆34Updated last year
• biodata-fun / htslib_howto
  Collection of simple C scripts for parsing vcf or bam files using the htslib C library. These scripts can be used as the starting point f…
  ☆11Updated 4 years ago
• jbelyeu / unfazed
  Unfazed by genomic variant phasing
  ☆27Updated last year
• bkehr / popins
  Population-scale detection of novel sequence insertions
  ☆27Updated 3 years ago
• CMU-SAFARI / FastRemap
  FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…
  ☆26Updated 3 years ago
• lh3 / pre-pe
  Preprocessing paired-end reads produced with experiment-specific protocols
  ☆32Updated 7 years ago
• nh13 / fqme
  ☆21Updated 11 months ago
• fulcrumgenomics / fgsv
  Tools to gather evidence for structural variation via breakpoint detection.
  ☆19Updated 7 months ago
• ssadedin / ximmer
  Ximmer is a system for CNV calling on exome and targeted genomic sequencing
  ☆19Updated 2 weeks ago
• TavorB / spectral_jaccard_similarity
  ☆14Updated 2 years ago
• varfish-org / mehari
  VEP-like tool for sequence ontology and HGVS annotation of VCF files
  ☆23Updated this week
• angelovangel / faster
  A (very) fast program for getting statistics about a fastq file, the way I need them, written in Rust
  ☆31Updated last week
• vsbuffalo / genomap
  A Rust library for storing generic genomic data by sorted chromosome name
  ☆17Updated last year
• COMBINE-lab / shoal
  Improved multi-sample transcript abundance estimates using adaptive priors
  ☆20Updated 7 years ago
• mreppell / Karp
  Accurate and fast taxonomic classification using pseudoaligning
  ☆21Updated 8 years ago
• edawson / svaha
  Convert structural variants to sequence graphs [ VCF + FASTA ---> GFA ]
  ☆11Updated last year
• edawson / svaha2
  Linear-time, low-memory construction of variation graphs
  ☆20Updated 5 years ago
• lh3 / gfa1
  This repo is deprecated. Please use gfatools instead.
  ☆15Updated 7 years ago