Alternatives and similar repositories for stitch

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

• chiulab / surpi
  SURPI
  ☆85Updated 9 years ago
• ToniWestbrook / paladin
  Protein Alignment and Detection Interface
  ☆60Updated last year
• sanger-pathogens / iva
  de novo virus assembler of Illumina paired reads
  ☆57Updated 4 years ago
• emepyc / Blast2lca
  Calculates the lowest common ancestors of each query sequence in a Blast result
  ☆31Updated 8 years ago
• tseemann / VelvetOptimiser
  Automatically optimise three of Velvet's assembly parameters.
  ☆48Updated 3 years ago
• fhcrc / seqmagick
  An imagemagick-like frontend to Biopython SeqIO
  ☆116Updated last year
• Oshlack / Corset
  Software for clustering de novo assembled transcripts and counting overlapping reads
  ☆74Updated 3 years ago
• knights-lab / BURST
  An ultrafast optimal aligner for mapping large NGS data to large genome databases.
  ☆57Updated last year
• mw55309 / Kraken_db_install_scripts
  Updated Kraken DB install scripts to cope with new-ish NCBI structure
  ☆48Updated 8 years ago
• cbg-ethz / shorah
  Repo for the software suite ShoRAH (Short Reads Assembly into Haplotypes)
  ☆40Updated 2 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.
  ☆49Updated 4 years ago
• snayfach / MIDAS
  An integrated pipeline for estimating strain-level genomic variation from metagenomic data
  ☆130Updated 2 years ago
• csmiller / EMIRGE
  EMIRGE reconstructs full length ribosomal genes from short read sequencing data.
  ☆37Updated 2 years ago
• chrisquince / DESMAN
  De novo Extraction of Strains from MetAgeNomes
  ☆71Updated 5 years ago
• Shamir-Lab / Recycler
  This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…
  ☆58Updated 4 years ago
• frankMusacchia / Annocript
  Annocript is a pipeline for the annotation of de-novo generated transcriptomes. It executes BLAST analysis with UniProt, NCBI Conserved …
  ☆56Updated 5 years ago
• husonlab / megan-ce
  MEGAN Community Edition
  ☆72Updated last year
• merenlab / illumina-utils
  A library and collection of scripts to work with Illumina paired-end data (for CASAVA 1.7+ pipeline).
  ☆92Updated last year
• CFSAN-Biostatistics / snp-pipeline
  SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…
  ☆63Updated 2 years ago
• gjospin / PhyloSift
  Phylogenetic and taxonomic analysis for genomes and metagenomes
  ☆82Updated 9 years ago
• thackl / minidot
  Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2
  ☆76Updated 9 years ago
• lh3 / bfc
  High-performance error correction for Illumina resequencing data
  ☆73Updated 9 years ago
• fbreitwieser / bamcov
  Quickly calculate and visualize sequence coverage in alignment files
  ☆100Updated 6 years ago
• khyox / recentrifuge
  Recentrifuge: robust comparative analysis and contamination removal for metagenomics
  ☆98Updated 5 months ago
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆73Updated 2 months ago
• ddarriba / prottest3
  Automatically exported from code.google.com/p/prottest3
  ☆38Updated 7 years ago
• mourisl / Rcorrector
  Error correction for Illumina RNA-seq reads
  ☆67Updated last year
• jdidion / atropos
  An NGS read trimming tool that is specific, sensitive, and speedy. (production)
  ☆125Updated 6 months ago
• genomeannotation / GAG
  Generates an NCBI .tbl file of annotations on a genome.
  ☆68Updated 7 years ago
• PacificBiosciences / barcoding
  Lima - Demultiplex Barcoded PacBio Samples
  ☆67Updated 5 months ago