Alternatives and similar repositories for biobambam2

Users that are interested in biobambam2 are comparing it to the libraries listed below

• genome-in-a-bottle / giab_latest_release
  This repository contains information about latest release from Genome in a Bottle project
  ☆74Updated 5 years ago
• mozack / abra2
  ABRA2
  ☆92Updated 2 years ago
• nygenome / lancet
  Microassembly based somatic variant caller for NGS data
  ☆155Updated 3 years ago
• Illumina / Pisces
  Somatic and germline variant caller for amplicon data. Recommended caller for tumor-only workflows.
  ☆98Updated 3 years ago
• lh3 / fermikit
  De novo assembly based variant calling pipeline for Illumina short reads
  ☆108Updated 4 years ago
• walaj / SeqLib
  C++ htslib/bwa-mem/fermi interface for interrogating sequence data
  ☆137Updated 2 weeks ago
• walaj / VariantBam
  Filtering and profiling of next-generational sequencing data using region-specific rules
  ☆78Updated last year
• svviz / svviz
  Read visualizer for structural variants
  ☆84Updated 6 years ago
• CCDG / Pipeline-Standardization
  ☆82Updated 6 years ago
• RCollins13 / CNView
  Visualization and annotation of CNVs from population-scale whole-genome sequencing data
  ☆71Updated 7 years ago
• COMBINE-lab / RapMap
  Rapid sensitive and accurate read mapping via quasi-mapping
  ☆89Updated 5 years ago
• Illumina / Polaris
  Data and information about the Polaris study
  ☆53Updated 5 years ago
• JohnLonginotto / pybam
  Very simple, pure python, BAM file reader
  ☆79Updated 6 years ago
• secastel / phaser
  phasing and Allele Specific Expression from RNA-seq
  ☆116Updated last year
• mozack / abra
  Assembly Based ReAligner
  ☆74Updated 7 years ago
• statgen / bamUtil
  ☆91Updated 3 years ago
• nygenome / Conpair
  Concordance and contamination estimator for tumor–normal pairs
  ☆60Updated 8 months ago
• Illumina / PlatinumGenomes
  The Platinum Genomes Truthset
  ☆88Updated 7 years ago
• gatk-workflows / five-dollar-genome-analysis-pipeline
  Workflows used for WGS data processing -- replaced by https://github.com/gatk-workflows/gatk4-genome-processing-pipeline
  ☆56Updated 5 years ago
• andyrimmer / Platypus
  Platypus Variant Caller
  ☆108Updated last year
• Griffan / VerifyBamID
  VerifyBamID2: A robust tool for DNA contamination estimation from sequence reads using ancestry-agnostic method.
  ☆97Updated last year
• brentp / duphold
  don't get DUP'ed or DEL'ed by your putative SVs.
  ☆106Updated 4 years ago
• cc2qe / vawk
  An awk-like VCF parser
  ☆56Updated last year
• tobiasrausch / alfred
  BAM Statistics, Feature Counting and Annotation
  ☆150Updated 3 weeks ago
• arq5x / bedtools-protocols
  ☆78Updated 11 years ago
• atks / vt
  A tool set for short variant discovery in genetic sequence data.
  ☆199Updated 4 years ago
• 10XGenomics / supernova
  10x Genomics Linked-Read Diploid De Novo Assembler
  ☆65Updated 6 years ago
• lh3 / CHM-eval
  ☆54Updated 5 years ago
• relipmoc / skewer
  ☆95Updated 2 years ago
• ultimatesource / denovogear
  A program to detect denovo-variants using next-generation sequencing data.
  ☆51Updated 5 years ago