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…
  ☆181Updated last month
• tseemann / barrnap
  Bacterial ribosomal RNA predictor
  ☆272Updated last week
• barricklab / breseq
  breseq is a computational pipeline for finding mutations relative to a reference sequence using high-throughput DNA resequencing data. It…
  ☆174Updated 2 months ago
• nextgenusfs / funannotate
  Eukaryotic Genome Annotation Pipeline
  ☆375Updated last week
• biobakery / phylophlan
  Precise phylogenetic analysis of microbial isolates and genomes from metagenomes
  ☆159Updated 7 months ago
• jiarong / VirSorter2
  customizable pipeline to identify viral sequences from (meta)genomic data
  ☆279Updated last year
• linnabrown / run_dbcan
  Run_dbcan V4, using genomes/metagenomes/proteomes of any assembled organisms (prokaryotes, fungi, plants, animals, viruses) to search for…
  ☆155Updated 8 months ago
• iqtree / iqtree2
  IQ-TREE software version 2: phylogenetics by maximum likelihood
  ☆320Updated 8 months ago
• bluenote-1577 / sylph
  ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.
  ☆283Updated 3 months ago
• kblin / ncbi-acc-download
  Download files from NCBI Entrez by accession
  ☆132Updated last year
• apcamargo / genomad
  geNomad: Identification of mobile genetic elements
  ☆282Updated 2 months ago
• labgem / PPanGGOLiN
  Build a partitioned pangenome graph from microbial genomes
  ☆291Updated last month
• AstrobioMike / GToTree
  A user-friendly workflow for phylogenomics
  ☆225Updated last month
• sanger-pathogens / circlator
  A tool to circularize genome assemblies
  ☆250Updated last year
• AdmiralenOla / Scoary
  Pan-genome wide association studies
  ☆205Updated last year
• MrOlm / drep
  Rapid comparison and dereplication of genomes
  ☆326Updated 2 months ago
• jotech / gapseq
  Informed prediction and analysis of bacterial metabolic pathways and genome-scale networks
  ☆201Updated last week
• cruizperez / MicrobeAnnotator
  Pipeline for metabolic annotation of microbial genomes
  ☆150Updated 10 months ago
• soedinglab / metaeuk
  MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics
  ☆201Updated 4 months ago
• widdowquinn / pyani
  Application and Python module for average nucleotide identity analyses of microbes.
  ☆218Updated 6 months ago
• schneebergerlab / plotsr
  Tool to plot synteny and structural rearrangements between genomes
  ☆337Updated 9 months ago
• rrwick / Trycycler
  A tool for generating consensus long-read assemblies for bacterial genomes
  ☆339Updated 4 months ago
• gbouras13 / pharokka
  fast phage annotation program
  ☆188Updated last week
• wdecoster / chopper
  ☆227Updated last month
• tseemann / mlst
  Scan contig files against PubMLST typing schemes
  ☆261Updated 2 weeks ago
• medema-group / BiG-SCAPE
  Similarity networks of biosynthetic gene clusters
  ☆149Updated 2 weeks ago
• DRL / blobtools
  Modular command-line solution for visualisation, quality control and taxonomic partitioning of genome datasets
  ☆208Updated last year
• motu-tool / mOTUs
  motus - a tool for marker gene-based OTU (mOTU) profiling
  ☆166Updated last month
• rcedgar / usearch12
  Open-source usearch
  ☆128Updated 5 months ago
• neherlab / pan-genome-analysis
  Processing pipeline for pan-genome visulization and exploration
  ☆143Updated 2 years ago