Alternatives and similar repositories for RESCUE:

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

• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆27Updated last year
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆22Updated 5 months ago
• leaemiliepradier / PlasForest
  A random forest classifier to identify contigs of plasmid origin in contig and scaffold genomes
  ☆17Updated last year
• MDU-PHL / bohra
  A pipeline for bioinformatics analysis of bacterial genomes
  ☆19Updated 6 months ago
• lmlui / Jorg
  MAG Circularization Method
  ☆33Updated 2 years ago
• hoelzer-lab / ribap
  A comprehensive bacterial core gene-set annotation pipeline based on Roary and pairwise ILPs
  ☆25Updated 2 months ago
• insapathogenomics / ReporTree
  A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data
  ☆30Updated last month
• leylabmpi / SynTracker
  SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…
  ☆25Updated 2 months ago
• tseemann / berokka
  🍊 💫 Trim, circularise and orient long read bacterial genome assemblies
  ☆26Updated 5 years ago
• microbial-pangenomes-lab / microGWAS
  Bacterial GWAS analysis
  ☆34Updated last month
• xinehc / melon
  Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes
  ☆34Updated last month
• raufs / skDER
  skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes to select representatives for comparative genomics and met…
  ☆41Updated 3 weeks ago
• rrwick / Core-SNP-filter
  a tool to filter sites in a FASTA-format whole-genome pseudo-alignment
  ☆41Updated last month
• stjacqrm / centroid
  tool to determine optimal refrerence genome given a set of fasta files
  ☆14Updated last year
• ablab / metaGT
  Pipeline for metagenome and metatranscriptome joint assembly
  ☆19Updated last year
• MrTomRod / scoary-2
  Calculate assocations between genes and traits
  ☆20Updated 2 months ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆48Updated 6 months ago
• LottePronk / whokaryote
  Classify metagenomic contigs as eukaryotic or prokaryotic
  ☆32Updated last year
• zjshi / Maast
  Microbial agile accurate SNP Typer
  ☆29Updated last year
• taxprofiler / taxpasta
  TAXnomic Profile Aggregation and STAndardisation
  ☆34Updated 2 months ago
• ikmb / MAGScoT
  MAGScoT - a MAG scoring and refinement tool
  ☆31Updated 3 months ago
• NickJD / ORForise
  Comparison pipeline for Prokaryote Protein Coding Gene Predictors
  ☆22Updated 8 months ago
• mbhall88 / lrge
  Genome size estimation from long read overlaps
  ☆47Updated last month
• OLC-Bioinformatics / ConFindr
  Intra-species bacterial contamination detection
  ☆24Updated last month
• LaborBerlin / score-assemblies
  Snakemake workflow for scoring and comparing multiple bacterial genome assemblies (Illumina, Nanopore) to reference genome(s).
  ☆24Updated 9 months ago
• broadinstitute / StrainGE
  strain-level analysis tools
  ☆33Updated 2 months ago
• R-Wright-1 / kraken_metaphlan_comparison
  R markdown documents copied from other folders on Dec 15th 2021
  ☆14Updated last year
• andrewjpage / tiptoft
  Predict plasmids from uncorrected long read data
  ☆39Updated 5 years ago
• wanyuac / GeneMates
  An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences
  ☆25Updated 2 years ago