Alternatives and similar repositories for halvade

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

• HadoopGenomics / Hadoop-BAM
  Hadoop-BAM is a Java library for the manipulation of files in common bioinformatics formats using the Hadoop MapReduce framework
  ☆70Updated 2 years ago
• sequencing / isaac_variant_caller
  This project is deprecated, please see strelka2 at https://github.com/Illumina/strelka
  ☆37Updated 8 years ago
• citiususc / BigBWA
  BigBWA is a new tool that uses the Big Data technology Hadoop to boost the performance of the Burrows–Wheeler aligner (BWA).
  ☆31Updated 2 years ago
• bigdatagenomics / avocado
  A Variant Caller, Distributed. Apache 2 licensed.
  ☆71Updated 6 years ago
• citiususc / SparkBWA
  SparkBWA is a new tool that exploits the capabilities of a Big Data technology as Apache Spark to boost the performance of one of the mos…
  ☆69Updated 5 years ago
• opencb / hpg-bigdata
  This repository implements converters and tools for working with NGS data in HPC or Hadoop cluster
  ☆17Updated 7 years ago
• bigdatagenomics / cannoli
  Distributed execution of bioinformatics tools on Apache Spark. Apache 2 licensed.
  ☆41Updated 3 months ago
• dnanexus / dxWDL
  Workflow Description Language compiler for the DNAnexus platform
  ☆40Updated last year
• amplab / smash
  Benchmarking toolkit for variant calling
  ☆47Updated 4 years ago
• Intel-HLS / GenomicsDB
  GenomicsDB
  ☆111Updated 2 years ago
• BD2KGenomics / toil-scripts
  Toil workflows for common genomic pipelines
  ☆33Updated 5 years ago
• broadgsa / gatk-protected
  Official code repository for GATK versions 1.0 through 3.7 (full licensed package). For GATK 4 code, see the https://github.com/broadinst…
  ☆143Updated 6 years ago
• sequencing / isaac_aligner
  Isaac Genome Alignment Software
  ☆36Updated 10 years ago
• mourisl / Lighter
  Fast and memory-efficient sequencing error corrector
  ☆93Updated last year
• DaehwanKimLab / hisat
  Fast spliced aligner with low memory requirements
  ☆41Updated 9 years ago
• broadinstitute / gatk-protected
  Obsolete/Legacy GATK repository -- go to https://github.com/broadinstitute/gatk instead
  ☆32Updated 7 years ago
• bigdatagenomics / mango
  A scalable genome browser. Apache 2 licensed.
  ☆125Updated 2 years ago
• nfergu / popstrat
  Population Stratification Analysis on Genomics Data Using Deep Learning
  ☆26Updated 8 years ago
• biointec / halvade
  Parallel read alignment and variant calling using MapReduce
  ☆19Updated 6 years ago
• enasequence / cramtools
  CRAM format specification and java API for read data.
  ☆60Updated 6 years ago
• broadinstitute / firepony
  Efficient base quality score recalibrator for NGS data
  ☆24Updated 9 years ago
• arq5x / cyvcf
  A fast Python library for VCF files leveraging Cython for speed.
  ☆52Updated 7 years ago
• pcingola / BigDataScript
  BigDataScript: Scirpting language for big data
  ☆92Updated 4 years ago
• KHP-Informatics / bioindocker15
  [Bio in Docker] Symposium 2015
  ☆21Updated 7 years ago
• lh3 / fermikit
  De novo assembly based variant calling pipeline for Illumina short reads
  ☆108Updated 4 years ago
• dnanexus-archive / samtools
  ☆30Updated 8 years ago
• opencb / hpg-aligner
  HPG Aligner is an ultrafast and highly sensitive Next-Generation Sequencing (NGS) mapper which supoprts both DNA and RNA alignment
  ☆34Updated 7 years ago
• bioinformed / vgraph
  vgraph is a command line application and Python library to compare genetic variants using variant graphs. ``vgraph`` utilizes a graph re…
  ☆43Updated 3 years ago
• bigdatagenomics / eggo
  Ready-to-go Parquet-formatted public 'omics datasets
  ☆30Updated 9 years ago
• BenLangmead / crossbow
  Variant calling from sequence reads using cloud computing
  ☆39Updated 11 years ago