Alternatives and similar repositories for seqtk:

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

• MultiQC / MultiQC
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,295Updated last week
• arq5x / bedtools2
  bedtools - the swiss army knife for genome arithmetic
  ☆979Updated last month
• jorvis / biocode
  Bioinformatics code libraries and scripts
  ☆523Updated 2 months ago
• tseemann / prokka
  Rapid prokaryotic genome annotation
  ☆890Updated last year
• bwa-mem2 / bwa-mem2
  The next version of bwa-mem
  ☆751Updated 9 months ago
• trinityrnaseq / trinityrnaseq
  Trinity RNA-Seq de novo transcriptome assembly
  ☆856Updated 3 months ago
• deeptools / deepTools
  Tools to process and analyze deep sequencing data.
  ☆720Updated last week
• davidemms / OrthoFinder
  Phylogenetic orthology inference for comparative genomics
  ☆755Updated 6 months ago
• mikolmogorov / Flye
  De novo assembler for single molecule sequencing reads using repeat graphs
  ☆826Updated this week
• OpenGene / fastp
  An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
  ☆2,068Updated 3 weeks ago
• DerrickWood / kraken2
  The second version of the Kraken taxonomic sequence classification system
  ☆784Updated 2 weeks ago
• eggnogdb / eggnog-mapper
  Fast genome-wide functional annotation through orthology assignment
  ☆616Updated 11 months ago
• DaehwanKimLab / hisat2
  Graph-based alignment (Hierarchical Graph FM index)
  ☆501Updated 5 months ago
• s-andrews / FastQC
  A quality control analysis tool for high throughput sequencing data
  ☆501Updated last year
• tanghaibao / jcvi
  Python library to facilitate genome assembly, annotation, and comparative genomics
  ☆817Updated 2 weeks ago
• FelixKrueger / TrimGalore
  A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS…
  ☆501Updated last month
• freebayes / freebayes
  Bayesian haplotype-based genetic polymorphism discovery and genotyping.
  ☆823Updated 2 months ago
• macs3-project / MACS
  MACS -- Model-based Analysis of ChIP-Seq
  ☆735Updated 3 weeks ago
• pachterlab / kallisto
  Near-optimal RNA-Seq quantification
  ☆678Updated 3 weeks ago
• COMBINE-lab / salmon
  🐟 🍣 🍱 Highly-accurate & wicked fast transcript-level quantification from RNA-seq reads using selective alignment
  ☆803Updated 11 months ago
• marbl / canu
  A single molecule sequence assembler for genomes large and small.
  ☆674Updated last week
• deeptools / pyGenomeTracks
  python module to plot beautiful and highly customizable genome browser tracks
  ☆805Updated 9 months ago
• crazyhottommy / RNA-seq-analysis
  RNAseq analysis notes from Ming Tang
  ☆1,007Updated 3 years ago
• crazyhottommy / bioinformatics-one-liners
  Bioinformatics one liners from Ming Tang
  ☆483Updated 4 years ago
• nf-core / rnaseq
  RNA sequencing analysis pipeline using STAR, RSEM, HISAT2 or Salmon with gene/isoform counts and extensive quality control.
  ☆1,021Updated last week
• rrwick / Unicycler
  hybrid assembly pipeline for bacterial genomes
  ☆596Updated 9 months ago
• lh3 / minimap2
  A versatile pairwise aligner for genomic and spliced nucleotide sequences
  ☆1,950Updated 2 weeks ago
• samtools / samtools
  Tools (written in C using htslib) for manipulating next-generation sequencing data
  ☆1,722Updated last week
• deweylab / RSEM
  RSEM: accurate quantification of gene and isoform expression from RNA-Seq data
  ☆438Updated last year
• BenLangmead / bowtie2
  A fast and sensitive gapped read aligner
  ☆711Updated 4 months ago