Alternatives and similar repositories for sratoolkit

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

• 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…
  ☆66Updated 2 years ago
• grenaud / deML
  Maximum likelihood demultiplexing
  ☆47Updated 3 months ago
• bioinform / metasv
  MetaSV: An accurate and integrative structural-variant caller for next generation sequencing
  ☆56Updated 7 years ago
• aquaskyline / LRSIM
  10x Genomics Reads Simulator
  ☆45Updated last year
• human-pangenomics / hpgp-data
  Data from the Human PanGenomics Project
  ☆60Updated 3 years ago
• sequencing / NxTrim
  Adapter trimming and virtual library creation for Illumina Nextera Mate Pair libraries.
  ☆54Updated 7 years ago
• dzerbino / oases
  De novo transcriptome assembler for short reads
  ☆62Updated 7 years ago
• mroosmalen / nanosv
  SV caller for nanopore data
  ☆91Updated 5 years ago
• ggonnella / gfapy
  Gfapy: a flexible and extensible software library for handling sequence graphs in Python
  ☆67Updated 7 months ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated last month
• wdecoster / nano-snakemake
  A snakemake pipeline for SV analysis from nanopore genome sequencing
  ☆51Updated 5 years ago
• BioInf-Wuerzburg / proovread
  PacBio hybrid error correction through iterative short read consensus
  ☆61Updated 6 years ago
• nathanweeks / exonerate
  A fork of exonerate: a generic tool for sequence alignment
  ☆66Updated last year
• sestaton / Transposome
  A toolkit for annotation of transposable element families from unassembled sequence reads
  ☆30Updated 2 years ago
• mw55309 / Kraken_db_install_scripts
  Updated Kraken DB install scripts to cope with new-ish NCBI structure
  ☆46Updated 8 years ago
• genotoul-bioinfo / dgenies
  Dotplot large Genomes in an Interactive, Efficient and Simple way
  ☆103Updated 5 months ago
• 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
  ☆79Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆55Updated 4 years ago
• tobiasrausch / wally
  Wally: Visualization of aligned sequencing reads and contigs
  ☆117Updated last month
• mapleforest / HaploMerger2
  ☆44Updated 8 years ago
• mateidavid / fast5
  A C++ header-only library for reading Oxford Nanopore Fast5 files
  ☆53Updated 2 years ago
• relipmoc / skewer
  ☆94Updated 2 years ago
• TimD1 / vcfdist
  vcfdist: Accurately benchmarking phased variant calls
  ☆80Updated last month
• nanoporetech / ont-assembly-polish
  ONT assembly and Illumina polishing pipeline
  ☆89Updated 4 years ago
• guyduche / Blast2Bam
  Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.
  ☆47Updated 4 years ago
• Magdoll / Cogent
  Coding Genome Reconstruction using Iso-Seq data
  ☆61Updated 3 years ago
• brentp / cigar
  simple library for dealing with SAM cigar strings
  ☆41Updated 4 years ago
• glennhickey / progressiveCactus
  Distribution package for the Prgressive Cactus multiple genome aligner. Dependencies are linked as submodules
  ☆85Updated 6 years ago
• milkschen / leviosam2
  Fast and accurate coordinate conversion between assemblies
  ☆113Updated 2 months ago