Alternatives and similar repositories for sratoolkit

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

• nathanweeks / exonerate
  A fork of exonerate: a generic tool for sequence alignment
  ☆70Updated 2 years ago
• tseemann / VelvetOptimiser
  Automatically optimise three of Velvet's assembly parameters.
  ☆48Updated 3 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆64Updated 7 years ago
• bcgsc / arcs
  🌈Scaffold genome sequence assemblies using linked or long read sequencing data
  ☆95Updated last year
• genotoul-bioinfo / dgenies
  Dotplot large Genomes in an Interactive, Efficient and Simple way
  ☆108Updated this week
• andyrimmer / Platypus
  Platypus Variant Caller
  ☆108Updated last year
• yechengxi / DBG2OLC
  A genome assembler that reduces the computational time of human genome assembly from 400,000 CPU hours to 2,000 CPU hours, utilizing long…
  ☆66Updated 5 years ago
• mcveanlab / mccortex
  De novo genome assembly and multisample variant calling
  ☆112Updated 6 years ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆50Updated 9 months ago
• ncbi / ngs
  NGS Language Bindings
  ☆119Updated 2 years ago
• zeeev / wham
  Structural variant detection and association testing
  ☆109Updated 2 years ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆59Updated 8 years ago
• CSB5 / lofreq
  LoFreq Star: Sensitive variant calling from sequencing data
  ☆108Updated last month
• jstjohn / SeqPrep
  Tool for stripping adaptors and/or merging paired reads with overlap into single reads.
  ☆145Updated 9 years ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆73Updated 9 years ago
• 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…
  ☆67Updated 3 years ago
• AndersenLab / VCF-kit
  VCF-kit: Assorted utilities for the variant call format
  ☆132Updated 5 months ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆88Updated 7 years ago
• MikkelSchubert / adapterremoval
  AdapterRemoval v2 - rapid adapter trimming, identification, and read merging
  ☆113Updated this week
• cpockrandt / genmap
  GenMap - Fast and Exact Computation of Genome Mappability
  ☆113Updated last year
• mitenjain / nanopore
  UCSC Nanopore group's software pipeline for reference-based sequence analysis
  ☆55Updated 10 years ago
• bcgsc / ntCard
  Estimating k-mer coverage histogram of genomics data
  ☆76Updated last year
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 3 years ago
• lh3 / unimap
  A EXPERIMENTAL fork of minimap2 optimized for assembly-to-reference alignment
  ☆87Updated 4 years ago
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆52Updated 5 years ago
• dnanexus-archive / parliament2
  Runs a combination of tools to generate structural variant calls on whole-genome sequencing data
  ☆103Updated 5 years ago
• NAL-i5K / GFF3toolkit
  Python programs for processing GFF3 files
  ☆101Updated last year
• ekg / bamaddrg
  adds sample names and read-group (RG) tags to BAM alignments
  ☆51Updated 4 years ago
• nhansen / SVanalyzer
  Tools for the analysis of structural variation in genomes
  ☆81Updated last year