Alternatives and similar repositories for raspir:

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

• kevsilva / StrainFLAIR
  Strain-level abundances estimation in metagenomic samples using variation graphs
  ☆25Updated 2 years ago
• EGTortuero / viga
  De novo VIral Genome Annotator
  ☆21Updated 6 months ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆22Updated 2 years ago
• maxibor / sam2lca
  Lowest Common Ancestor from a SAM/BAM/CRAM alignment file
  ☆9Updated 7 months ago
• aweimann / traitar
  ☆22Updated last year
• quadram-institute-bioscience / dadaist2
  Dadaist2 🟨 Highway to R
  ☆13Updated 3 weeks ago
• AllTheBacteria / Phylign
  Map query sequences to the assemblies of all pre-June 2023 bacteria (https://ftp.ebi.ac.uk/pub/databases/AllTheBacteria/Releases/0.2/) on…
  ☆12Updated 10 months ago
• AfZheng126 / MORA
  MetagenOmic read Re-Assigner and abundance quantifier
  ☆18Updated 2 months ago
• nick-youngblut / traitar3
  From genomes to phenotypes: Traitar3, the microbial trait analyzer (for Python3)
  ☆22Updated 8 months ago
• KThorellGroup / BACTpipe
  BACTpipe: An assembly and annotation pipeline for bacterial genomics
  ☆20Updated 3 months ago
• davised / get_assemblies
  Download assembly files from NCBI
  ☆12Updated last year
• ewissel / hAMRoaster
  hAMRoaster is an analysis pipeline that can compare the output of tools for detecting AMR genes and provide metrics of their performance
  ☆22Updated last year
• FredHutch / nf-anvio-pangenome
  Analyze a set of genomes with the anvi'o pangenome pipeline
  ☆17Updated last year
• smangul1 / MiCoP
  MiCoP is a method for high-accuracy profiling of viral and fungal metagenomic communities.
  ☆15Updated 2 years ago
• dr-joe-wirth / primerForge
  software to identify primers that can distinguish genomes
  ☆21Updated 2 months ago
• tylerbarnum / perchlorate-metagenome-2018
  Scripts used in the publication Tyler P. Barnum, Israel A. Figueroa, Charlotte I. Carlström, Lauren N. Lucas, Anna L. Engelbrektson, and …
  ☆10Updated 5 years ago
• maxemil / PhyloMagnet
  screening metagenomes for arbitrary lineages, using gene-centric assembly methods and phylogenetics
  ☆11Updated 4 years ago
• zhaoc1 / nanoflow
  Bioinformatics pipeline for nanopore sequencing data
  ☆10Updated 6 years ago
• metasnv-tool / metaSNV
  MetaSNV, a metagenomic SNV calling pipeline.
  ☆20Updated 3 years ago
• aesheppard / TETyper
  transposable element typing pipeline
  ☆17Updated last year
• althonos / pyskani
  PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.
  ☆27Updated 2 weeks ago
• KoslickiLab / fmh-funprofiler
  A functional profiler for metagenomes using FracMinHash
  ☆16Updated last month
• lmc297 / bactaxR
  Bacterial taxonomy construction and evaluation in R
  ☆13Updated last year
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆23Updated 8 months ago
• janepipistrelle / bacterial_GWAS_tutorial
  Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop
  ☆18Updated 9 years ago
• LuoGroup2023 / PanTax
  Strain-level taxonomic classification of metagenomic data using pangenome graphs
  ☆23Updated 4 months ago
• lozuponelab / AMON
  Annotation of Metabolite Origin via Networks: A tool for predicting putative metabolite origins for microbes or between microbes and host…
  ☆21Updated 11 months ago
• leoisl / bacterial_assembly_pipeline
  ☆11Updated last year
• kangxiongbin / StrainXpress
  StrainXpress is a de novo assembly method which base on overlap-layout-consensus (OLC) paradigm and can fast and accurately assemble high…
  ☆13Updated last year
• qiyunlab / binarena
  BinaRena: Interactive Visualization and Binning of Metagenomic Contigs
  ☆31Updated 7 months ago