saketkc / pysradbView external linksLinks
Package for fetching metadata and downloading data from SRA/ENA/GEO
☆348Dec 9, 2025Updated 2 months ago
Alternatives and similar repositories for pysradb
Users that are interested in pysradb are comparing it to the libraries listed below
Sorting:
- A tool to find sequencing data and metadata from public databases.☆593Aug 13, 2024Updated last year
- Download FASTQ files from SRA or ENA repositories.☆367Feb 1, 2026Updated 2 weeks ago
- genes and genomes at your fingertips☆407Sep 30, 2025Updated 4 months ago
- A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA☆109Aug 18, 2025Updated 5 months ago
- python module to plot beautiful and highly customizable genome browser tracks☆864Jul 10, 2024Updated last year
- parallel fastq-dump wrapper☆303Apr 26, 2023Updated 2 years ago
- Quickly search, compare, and analyze genomic and metagenomic data sets.☆538Feb 3, 2026Updated last week
- Performant Pythonic GenomicRanges☆493Jan 27, 2026Updated 2 weeks ago
- Pipeline to fetch metadata and raw FastQ files from public databases☆186Updated this week
- ultrafast taxonomic profiling and genome querying for metagenomic samples by abundance-corrected minhash.☆290Feb 3, 2026Updated last week
- a python package for fast random access to sequences from plain and gzipped FASTA/Q files☆289Jan 16, 2026Updated 3 weeks ago
- An ultra-fast all-in-one FASTQ preprocessor (QC/adapters/trimming/filtering/splitting/merging...)☆2,283Jan 22, 2026Updated 3 weeks ago
- An efficient CLI to extract sequences from the SRA☆120Jan 30, 2026Updated 2 weeks ago
- A list of interesting genome browser and genome visualization programs☆1,047Feb 4, 2026Updated last week
- k-mers and the like☆22Updated this week
- A Practical and Efficient NCBI Taxonomy Toolkit, also supports creating NCBI-style taxdump files for custom taxonomies like GTDB/ICTV☆456Jan 5, 2026Updated last month
- Bioconvert is a collaborative project to facilitate the interconversion of life science data from one format to another.☆387Jun 19, 2025Updated 7 months ago
- Aggregate results from bioinformatics analyses across many samples into a single report.☆1,419Jan 15, 2026Updated last month
- A grammar of graphics for comparative genomics☆742Feb 5, 2026Updated last week
- Easier download/extract of FASTA/Q read data and metadata from the ENA, NCBI, AWS or GCP.☆294Aug 18, 2025Updated 5 months ago
- A cross-platform and ultrafast toolkit for FASTA/Q file manipulation☆1,509Updated this week
- Jupyter notebook based genomic data visualization toolkit.☆249Dec 4, 2025Updated 2 months ago
- Fast, robust ANI and aligned fraction for (metagenomic) genomes and contigs.☆235Oct 12, 2025Updated 4 months ago
- The next version of bwa-mem☆816Oct 15, 2025Updated 4 months ago
- Read alignment statistics for metagenomics☆387Jan 16, 2026Updated 3 weeks ago
- A simple toolset for BED files (warning: CLI may change before bedtk becomes stable)☆143Aug 24, 2025Updated 5 months ago
- Light-weight Snakemake workflow for preprocessing and statistical analysis of RNA-seq data☆166Oct 2, 2025Updated 4 months ago
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆176Jan 7, 2026Updated last month
- Customizable workflows based on snakemake and python for the analysis of NGS data☆397Jan 23, 2026Updated 3 weeks ago
- Accurate metagenomic profiling && Fast large-scale sequence/genome searching☆205Sep 22, 2023Updated 2 years ago
- ➡️️➡️️⬅️️➡️️ Draw gene arrow maps in ggplot2☆572Jan 13, 2026Updated last month
- An accurate GFF3/GTF lift over pipeline☆526Aug 1, 2023Updated 2 years ago
- Quickly calculate and visualize sequence coverage in alignment files☆100Jun 22, 2019Updated 6 years ago
- A versatile toolkit for k-mers with taxonomic information☆82Aug 28, 2025Updated 5 months ago
- Rapid & standardized annotation of bacterial genomes, MAGs & plasmids☆606Updated this week
- GFF and GTF file manipulation and interconversion☆313Jan 26, 2026Updated 2 weeks ago
- Scripts to download genomes from the NCBI FTP servers☆1,058Jul 28, 2025Updated 6 months ago
- Tools to process and analyze deep sequencing data.☆752Jul 23, 2025Updated 6 months ago
- A versatile pairwise aligner for genomic and spliced nucleotide sequences☆2,126Dec 12, 2025Updated 2 months ago