Alternatives and similar repositories for gget

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

• pachterlab / ffq

  View on GitHub
  A tool to find sequencing data and metadata from public databases.
  ☆593Aug 13, 2024Updated last year
• vanheeringen-lab / genomepy

  View on GitHub
  genes and genomes at your fingertips
  ☆407Sep 30, 2025Updated 4 months ago
• bioconvert / bioconvert

  View on GitHub
  Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.
  ☆387Jun 19, 2025Updated 7 months ago
• scverse / PyDESeq2

  View on GitHub
  A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
  ☆731Updated this week
• rpetit3 / fastq-dl

  View on GitHub
  Download FASTQ files from SRA or ENA repositories.
  ☆364Feb 1, 2026Updated last week
• lh3 / miniprot

  View on GitHub
  Align proteins to genomes with splicing and frameshift
  ☆395Jan 5, 2026Updated last month
• bionumpy / bionumpy

  View on GitHub
  Python library for array programming on biological datasets. Documentation available at: https://bionumpy.github.io/bionumpy/
  ☆291Jun 16, 2025Updated 7 months ago
• cmdcolin / awesome-genome-visualization

  View on GitHub
  A list of interesting genome browser and genome visualization programs
  ☆1,047Feb 4, 2026Updated last week
• igvteam / igv-reports

  View on GitHub
  Python application to generate self-contained pages embedding IGV visualizations, with no dependency on original input files.
  ☆398Feb 3, 2026Updated last week
• thackl / gggenomes

  View on GitHub
  A grammar of graphics for comparative genomics
  ☆742Feb 5, 2026Updated last week
• gamcil / clinker

  View on GitHub
  Gene cluster comparison figure generator
  ☆633Dec 22, 2025Updated last month
• pachterlab / gget_examples

  View on GitHub
  Examples for gget (https://github.com/pachterlab/gget).
  ☆39Sep 13, 2025Updated 5 months ago
• kcleal / gw

  View on GitHub
  Genome browser and variant annotation
  ☆387Oct 30, 2025Updated 3 months ago
• soedinglab / MMseqs2

  View on GitHub
  MMseqs2: ultra fast and sensitive search and clustering suite
  ☆1,974Updated this week
• deeptools / pyGenomeTracks

  View on GitHub
  python module to plot beautiful and highly customizable genome browser tracks
  ☆864Jul 10, 2024Updated last year
• OpenGene / fastp

  View on GitHub
  An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)
  ☆2,283Jan 22, 2026Updated 3 weeks ago
• ArcInstitute / xsra

  View on GitHub
  An efficient CLI to extract sequences from the SRA
  ☆120Jan 30, 2026Updated 2 weeks ago
• CompEpigen / figeno

  View on GitHub
  Tool for plotting sequencing data along genomic coordinates.
  ☆336Dec 12, 2025Updated 2 months ago
• brentp / mosdepth

  View on GitHub
  fast BAM/CRAM depth calculation for WGS, exome, or targeted sequencing
  ☆817Nov 6, 2025Updated 3 months ago
• shenwei356 / seqkit

  View on GitHub
  A cross-platform and ultrafast toolkit for FASTA/Q file manipulation
  ☆1,509Updated this week
• open2c / bioframe

  View on GitHub
  Genomic interval operations on Pandas DataFrames
  ☆188Feb 2, 2026Updated last week
• gosling-lang / gos

  View on GitHub
  A declarative interactive genomics visualization library for Python.
  ☆235Nov 24, 2025Updated 2 months ago
• MultiQC / MultiQC

  View on GitHub
  Aggregate results from bioinformatics analyses across many samples into a single report.
  ☆1,419Jan 15, 2026Updated 3 weeks ago
• scverse / scvi-tools

  View on GitHub
  Deep probabilistic analysis of single-cell and spatial omics data
  ☆1,563Updated this week
• schneebergerlab / plotsr

  View on GitHub
  Tool to plot synteny and structural rearrangements between genomes
  ☆340Apr 7, 2025Updated 10 months ago
• pachterlab / seqspec

  View on GitHub
  machine-readable file format for genomic library sequence and structure
  ☆126Updated this week
• pyranges / pyranges

  View on GitHub
  Performant Pythonic GenomicRanges
  ☆493Jan 27, 2026Updated 2 weeks ago
• zqfang / GSEApy

  View on GitHub
  Gene Set Enrichment Analysis in Python
  ☆690Dec 17, 2025Updated last month
• ygidtu / trackplot

  View on GitHub
  trackplot is a tool for visualizing various next-generation sequencing (NGS) data, including DNA-seq, RNA-seq, single-cell RNA-seq and fu…
  ☆99Dec 6, 2025Updated 2 months ago
• shenwei356 / kmcp

  View on GitHub
  Accurate metagenomic profiling && Fast large-scale sequence/genome searching
  ☆205Sep 22, 2023Updated 2 years ago
• Edinburgh-Genome-Foundry / DnaFeaturesViewer

  View on GitHub
  Python library to plot DNA sequence features (e.g. from Genbank files)
  ☆680Jul 2, 2025Updated 7 months ago
• cmdcolin / oddgenes

  View on GitHub
  A small database of weird gene annotations
  ☆205Updated this week
• zaeleus / noodles

  View on GitHub
  Bioinformatics I/O libraries in Rust
  ☆650Updated this week
• sgkit-dev / sgkit

  View on GitHub
  Scalable genetics toolkit
  ☆274Sep 30, 2025Updated 4 months ago
• vsbuffalo / scidataflow

  View on GitHub
  Command line scientific data management tool
  ☆231Nov 4, 2024Updated last year
• moshi4 / pyGenomeViz

  View on GitHub
  A genome visualization python package for comparative genomics
  ☆390Dec 6, 2025Updated 2 months ago
• oschwengers / bakta

  View on GitHub
  Rapid & standardized annotation of bacterial genomes, MAGs & plasmids
  ☆606Updated this week
• bbuchfink / diamond

  View on GitHub
  Accelerated BLAST compatible local sequence aligner.
  ☆1,239Updated this week
• saketkc / pysradb

  View on GitHub
  Package for fetching metadata and downloading data from SRA/ENA/GEO
  ☆348Dec 9, 2025Updated 2 months ago