vishnubob / ssw

Related projects ⓘ

Alternatives and complementary repositories for ssw

• arq5x / grabix
  a wee tool for random access into BGZF files.
  ☆84Updated 6 years ago
• Daniel-Liu-c0deb0t / UMICollapse
  Accelerating the deduplication and collapsing process for reads with Unique Molecular Identifiers (UMI). Heavily optimized for scalabilit…
  ☆63Updated 7 months ago
• slowkow / pytabix
  Retrieve data in genomic intervals with a Python interface for tabix.
  ☆83Updated 7 years ago
• ncsa / NEAT
  NEAT (NExt-generation Analysis Toolkit) simulates next-gen sequencing reads and can learn simulation parameters from real data.
  ☆50Updated last week
• 10XGenomics / rust-pseudoaligner
  Single-Cell RNA-seq pseudo-aligner
  ☆50Updated 6 months ago
• ydLiu-HIT / deSALT
  deSALT - De Bruijn graph-based Spliced Aligner for Long Transcriptome reads
  ☆44Updated 2 years ago
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆31Updated last year
• pmelsted / pizzly
  Fast fusion detection using kallisto
  ☆80Updated 2 weeks ago
• COMBINE-lab / pufferfish
  An efficient index for the colored, compacted, de Bruijn graph
  ☆107Updated last month
• splatlab / squeakr
  Squeakr: An Exact and Approximate k -mer Counting System
  ☆85Updated 9 months ago
• acg-team / tral
  Tandem Repeat Annotation Library
  ☆24Updated last year
• arshajii / ema
  Fast & accurate alignment of barcoded short-reads
  ☆32Updated last year
• marcelm / dnaio
  Efficiently read and write sequencing data from Python
  ☆62Updated this week
• dpryan79 / libBigWig
  A C library for handling bigWig files
  ☆73Updated 2 years ago
• ambj / MuPeXI
  MuPeXI: the mutant peptide extractor and informer, a tool for predicting neo-epitopes from tumor sequencing data.
  ☆46Updated 5 years ago
• quinlan-lab / vcf2db
  create a gemini-compatible database from a VCF
  ☆56Updated 3 years ago
• appris / appris
  Annotating principal splice isoforms
  ☆14Updated last month
• karel-brinda / ococo
  Ococo: the first online variant and consensus caller. Call genomic consensus directly from an unsorted SAM/BAM stream.
  ☆47Updated 5 years ago
• NCBI-Hackathons / TheHumanPangenome
  A Strategy for Building and Using a Human Reference Pangenome
  ☆70Updated 4 years ago
• mklarqvist / tomahawk
  Fast calculations of linkage-disequilibrium in large-scale human cohorts
  ☆41Updated 5 years ago
• RWilton / Arioc
  Arioc: GPU-accelerated DNA short-read alignment
  ☆65Updated last month
• Oshlack / STRetch
  Method for detecting STR expansions from short-read sequencing data
  ☆62Updated 2 years ago
• liguowang / cpgtools
  Python package to analyze DNA methylation data
  ☆39Updated last month
• 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…
  ☆65Updated last year
• broadinstitute / pyfrost
  Python bindings for Bifrost with a NetworkX compatible API
  ☆27Updated last year
• 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 …
  ☆67Updated 2 years ago
• ChristopherWilks / megadepth
  BigWig and BAM utilities
  ☆92Updated 7 months ago
• kamimrcht / REINDEER
  REINDEER REad Index for abuNDancE quERy
  ☆56Updated 3 months ago
• fls-bioinformatics-core / genomics
  Scripts, utilities and programs for genomic bioinformatics.
  ☆81Updated 8 months ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated 10 months ago