Alternatives and similar repositories for SHOOT

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

• josuebarrera / GenEra
  genEra is a fast and easy-to-use command-line tool that estimates the age of the last common ancestor of protein-coding gene families.
  ☆54Updated last year
• simonwhelan / Divvier
  A program for divvying or partially filtering multiple sequence alignments
  ☆27Updated 6 years ago
• steineggerlab / conterminator
  Detection of incorrectly labeled sequences across kingdoms
  ☆87Updated 3 years ago
• JLSteenwyk / orthohmm
  Improved Inference of Ortholog Groups using Hidden Markov Models
  ☆37Updated 3 months ago
• xfengnefx / hifiasm-meta
  hifiasm_meta - de novo metagenome assembler, based on hifiasm, a haplotype-resolved de novo assembler for PacBio Hifi reads.
  ☆69Updated last month
• rki-mf1 / clean
  A nextflow pipeline for decontamination of short reads, long reads and contigs
  ☆55Updated 6 months ago
• fmalmeida / MpGAP
  Multi-platform genome assembly pipeline for Illumina, Nanopore and PacBio reads
  ☆64Updated last year
• wtmatlock / flanker
  Gene-flank analysis tool
  ☆34Updated last year
• evolbioinfo / booster
  ☆28Updated 5 years ago
• compgenomicslab / TreeProfiler
  tree visualization for tree + annotation data
  ☆45Updated 6 months ago
• balabanmetin / uDance
  ☆43Updated last year
• AliTVTeam / AliTV
  Visualize whole genome alignments as linear maps
  ☆74Updated 4 months ago
• steineggerlab / ufcg
  UFCG: Universal Fungal Core Genes
  ☆34Updated 5 months ago
• PedroMTQ / mantis
  A package to annotate protein sequences
  ☆60Updated 10 months ago
• kussell-lab / mcorr
  Inferring bacterial recombination rates from large-scale sequencing datasets.
  ☆42Updated 2 years ago
• rderelle / Broccoli
  orthology assignment using phylogenetic and network analyses
  ☆53Updated 2 months ago
• nextgenusfs / funannotate2
  Eukaryotic genome annotation software.
  ☆22Updated last month
• flu-crew / parnas
  Phylogenetic maximum representation sampling: choosing most representative strains or taxa
  ☆40Updated 3 months ago
• SWittouck / SCARAP
  A toolkit for prokaryotic comparative genomics
  ☆51Updated 2 months ago
• jonas-fuchs / varVAMP
  Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.
  ☆45Updated this week
• DessimozLab / FastOMA
  FastOMA is a scalable software package to infer orthology relationship.
  ☆86Updated this week
• niemasd / ViralMSA
  Reference-guided multiple sequence alignment of viral genomes
  ☆70Updated last month
• Serka-M / Digester-MultiSequencing
  Repository for scripts and resources used for metagenomics with Nanopore, PacBio and Illumina sequencing
  ☆21Updated 2 years ago
• simonwhelan / prequal
  PREQUAL: a pre-alignment quality filter for comparative sequence analyses
  ☆33Updated 3 years ago
• jonas-fuchs / BAMdash
  create a interactive coverage plot dashboard from bam files and add gb, vcf and bed tracks
  ☆57Updated 2 weeks ago
• uio-cels / NucDiff
  In-depth characterization and annotation of differences between two sets of DNA sequences
  ☆63Updated 5 years ago
• mtisza1 / Cenote-Taker3
  Discover and annotate the virome
  ☆56Updated 2 months ago
• cjneely10 / MetaSanity
  Pipeline for major biological analyses.
  ☆36Updated 3 years ago
• irycisBioinfo / PATO
  PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.
  ☆62Updated 2 years ago
• LANL-Bioinformatics / PhaME
  Given a reference, PhaME extracts SNPs from complete genomes, draft genomes and/or reads. Uses SNP multiple sequence alignment to constr…
  ☆33Updated 2 years ago