Alternatives and similar repositories for trimal

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

• abacus-gene / paml
  PAML is a package of programs for phylogenetic analyses of DNA or protein sequences using maximum likelihood. Please report only **techni…
  ☆167Updated 3 months ago
• linnabrown / run_dbcan
  Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…
  ☆154Updated 4 months ago
• soedinglab / metaeuk
  MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
  ☆192Updated this week
• biobakery / phylophlan
  Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
  ☆155Updated 2 months ago
• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆150Updated 5 months ago
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…
  ☆167Updated last month
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆244Updated last month
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆247Updated last year
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆252Updated last year
• jotech / gapseq
  Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
  ☆186Updated this week
• apcamargo / genomad
  geNomad: Identification of mobile genetic elements
  ☆257Updated last month
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆219Updated 3 weeks ago
• labgem / PPanGGOLiN
  Build a partitioned pangenome graph from microbial genomes
  ☆276Updated this week
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆202Updated last year
• kblin / ncbi-acc-download
  Download files from NCBI Entrez by accession
  ☆127Updated 11 months ago
• CompSynBioLab-KoreaUniv / FunGAP
  FunGAP: fungal Genome Annotation Pipeline
  ☆111Updated 2 months ago
• iqtree / iqtree2
  IQ-TREE software version 2: phylogenetics by maximum likelihood
  ☆300Updated 4 months ago
• rcedgar / usearch12
  Open-source usearch
  ☆117Updated last week
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆361Updated last month
• WrightonLabCSU / DRAM
  Distilled and Refined Annotation of Metabolism: A tool for the annotation and curation of function for microbial and viral genomes
  ☆293Updated this week
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆141Updated last year
• PacificBiosciences / pb-metagenomics-tools
  Tools and pipelines tailored to using PacBio HiFi Reads for metagenomics
  ☆193Updated last month
• aineniamh / snipit
  snipit: summarise snps relative to your reference sequence
  ☆164Updated 3 months ago
• phac-nml / staramr
  Scans genome contigs against the ResFinder, PlasmidFinder, and PointFinder databases.
  ☆164Updated 8 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆176Updated 3 weeks ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆204Updated last year
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆307Updated 2 months ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆331Updated last year
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆126Updated this week
• veg / hyphy
  HyPhy: Hypothesis testing using Phylogenies
  ☆239Updated this week