Alternatives and similar repositories for biocode

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

• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆819Updated 4 months ago
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆679Updated 5 months ago
• tanghaibao / jcvi
  Python library to facilitate genome assembly, annotation, and comparative genomics
  ☆878Updated this week
• jdidion / biotools
  A list of useful bioinformatics resources
  ☆619Updated 7 months ago
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆854Updated last year
• gamcil / clinker
  Gene cluster comparison figure generator
  ☆623Updated last year
• kblin / ncbi-genome-download
  Scripts to download genomes from the NCBI FTP servers
  ☆1,051Updated 4 months ago
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆884Updated 7 months ago
• tseemann / prokka
  Rapid prokaryotic genome annotation
  ☆942Updated last year
• cmdcolin / awesome-genome-visualization
  A list of interesting genome browser and genome visualization programs
  ☆1,037Updated this week
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆747Updated 4 months ago
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆499Updated 5 years ago
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆879Updated 10 months ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆520Updated 3 months ago
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆557Updated 2 weeks ago
• DerrickWood / kraken2
  The second version of the Kraken taxonomic sequence classification system
  ☆853Updated 2 weeks ago
• ablab / spades
  SPAdes Genome Assembler
  ☆883Updated this week
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆533Updated 3 months ago
• NBISweden / AGAT
  Another Gtf/Gff Analysis Toolkit https://nbisweden.github.io/AGAT/
  ☆545Updated last week
• lh3 / seqtk
  Toolkit for processing sequences in FASTA/Q formats
  ☆1,515Updated 6 months ago
• chhylp123 / hifiasm
  Hifiasm: a haplotype-resolved assembler for accurate Hifi reads
  ☆710Updated 8 months ago
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆628Updated last year
• jtamames / SqueezeMeta
  A complete pipeline for metagenomic analysis
  ☆439Updated this week
• gpertea / gffread
  GFF/GTF utility providing format conversions, region filtering, FASTA sequence extraction and more
  ☆445Updated 11 months ago
• chapmanb / bcbb
  Incubator for useful bioinformatics code, primarily in Python and R
  ☆643Updated 10 months ago
• bxlab / metaWRAP
  MetaWRAP - a flexible pipeline for genome-resolved metagenomic data analysis
  ☆451Updated 2 years ago
• shenwei356 / taxonkit
  A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV
  ☆451Updated 7 months ago
• marbl / canu
  A single molecule sequence assembler for genomes large and small.
  ☆695Updated last month
• nf-core / rnaseq
  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
  ☆1,163Updated last week
• mummer4 / mummer
  Mummer alignment tool
  ☆540Updated 10 months ago