Alternatives and similar repositories for find-cags

Users that are interested in find-cags are comparing it to the libraries listed below

• genomic-medicine-sweden / gms_16S
  A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.
  ☆14Updated last week
• chrisquince / STRONG
  Strain Resolution ON Graphs
  ☆48Updated 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
• Magdoll / MagPhase
  Phasing for metagenomics using PacBio long reads
  ☆17Updated 3 years ago
• bacpop / pp-sketchlib
  Library of sketching functions used by PopPUNK
  ☆31Updated 2 months ago
• edgraham / BinSanity
  Unsupervised Clustering of Environmental Microbial Assemblies Using Coverage and Affinity Propagation
  ☆30Updated 4 years ago
• johnmcculloch / JAMS_BW
  Just a Microbiology System (JAMS) - a suite for analyzing microbiological sequencing data for use on NIH HPC systems (Biowulf)
  ☆21Updated this week
• jlumpe / gambit
  A methodology to rapidly leverage whole genome sequencing of bacterial isolates for clinical identification.
  ☆33Updated 6 months ago
• lorrainea / MARS
  MARS: improving Multiple circular sequence Alignment using Refined Sequences
  ☆29Updated last month
• d-mcgrath / MetaPathPredict
  A machine learning-based tool for predicting metabolic modules in incomplete bacterial genomes.
  ☆18Updated 8 months ago
• nanoporetech / DTR-phage-pipeline
  ☆16Updated last year
• sanger-pathogens / plasmidtron
  Assembling the cause of phenotypes and genotypes from NGS data
  ☆29Updated 5 years ago
• pirovc / grimer
  GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…
  ☆23Updated 2 years ago
• sanger-pathogens / gff3toembl
  Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI
  ☆29Updated 6 years ago
• bsmith89 / StrainFacts
  Factorize metagenotypes to infer strains and their abundances
  ☆12Updated 8 months ago
• tseemann / ekidna
  Assembly based core genome SNP alignments for bacteria
  ☆25Updated 5 years ago
• davised / get_assemblies
  Download assembly files from NCBI
  ☆12Updated 2 years ago
• quadram-institute-bioscience / dadaist2
  Dadaist2 🟨 Highway to R
  ☆13Updated 3 months ago
• bacpop / CELEBRIMBOR
  Core ELEment Bias Removal In Metagenome Binned ORthologs: A pipeline to make pangenomes from MAGs
  ☆24Updated 11 months ago
• phac-nml / refseq_masher
  Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database
  ☆42Updated 4 years ago
• qiyunlab / binarena
  BinaRena: Interactive Visualization and Binning of Metagenomic Contigs
  ☆32Updated 10 months ago
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆27Updated 6 months ago
• HaploConduct / HaploConduct
  Haplotype-aware genome assembly toolkit
  ☆29Updated 5 years ago
• borenstein-lab / fishtaco
  FishTaco (Functional Shifts Taxonomic Contributors) is a metagenomic computational framework that aims to identify the driver taxa of mic…
  ☆24Updated 3 years ago
• yuwwu / ezTree
  A Perl pipeline for identifying marker genes and build phylogenetic trees for a set of genomes
  ☆13Updated 8 years ago
• bluenote-1577 / floria
  Strain-level haplotyping for metagenomes with short or long-reads.
  ☆51Updated 2 months ago
• Arkadiy-Garber / SprayNPray
  Rapid and simple taxonomic profiling of genome and metagenome contigs
  ☆28Updated 2 years ago
• santeripuranen / SpydrPick
  SpydrPick: mutual information based detection of pairs of genomic loci co-evolving under a shared selective pressure.
  ☆13Updated 3 years ago
• sgearle / bugwas
  Locus and lineage tests for bacterial GWAS
  ☆29Updated 7 years ago
• Golob-Minot / geneshot
  ☆28Updated last year