louiejtaylor / grabseqsView external linksLinks
A utility for easy downloading of reads from next-gen sequencing repositories like NCBI SRA
☆109Aug 18, 2025Updated 5 months ago
Alternatives and similar repositories for grabseqs
Users that are interested in grabseqs are comparing it to the libraries listed below
Sorting:
- Package for fetching metadata and downloading data from SRA/ENA/GEO☆348Dec 9, 2025Updated 2 months ago
- Apollo is an assembly polishing algorithm that attempts to correct the errors in an assembly. It can take multiple set of reads in a sing…☆28May 10, 2020Updated 5 years ago
- Circular bacterial genome plots based on BLAST or NUCMER/PROMER alignments☆108Dec 11, 2023Updated 2 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Apr 10, 2025Updated 10 months ago
- A Python package for obtaining, parsing and exploring biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Feb 5, 2026Updated last week
- A fast approximate aligner for long DNA sequences☆286Oct 11, 2024Updated last year
- Python library to plot DNA sequence features (e.g. from Genbank files)☆680Jul 2, 2025Updated 7 months ago
- Local Lineage and Monophyly Assessment☆16Aug 5, 2021Updated 4 years ago
- FastRemap, a C++ tool for quickly remapping reads between genome assemblies based on the commonly used CrossMap tool. Link to paper: http…☆26Aug 24, 2022Updated 3 years ago
- Indexing & querying large assembly graphs -- in space, no one can hear you miao!☆118Jan 29, 2026Updated 2 weeks ago
- VIRify: detection of phages and eukaryotic viruses from metagenomic and metatranscriptomic assemblies☆146Dec 17, 2025Updated last month
- ☆27Dec 22, 2025Updated last month
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆77Aug 30, 2016Updated 9 years ago
- Coronavirus (SARS-Cov-2) sequencing analysis☆10Oct 5, 2021Updated 4 years ago
- Fast and sensitive discovery of complete phages and prophages in bacterial genome sequences☆22Dec 16, 2024Updated last year
- Trimming tool for Oxford Nanopore sequence data☆22Jun 22, 2021Updated 4 years ago
- Scripts to analyze gene content and make a concatenated alignment of core genes from bacterial genomes.☆19Jul 20, 2018Updated 7 years ago
- Rapid determination of appropriate reference genomes.☆99Jan 22, 2025Updated last year
- Phylogeny Enhanded Prediction of PAN-genome☆43Jul 17, 2020Updated 5 years ago
- GC Skew Test for Bacterial Genomes☆32Sep 29, 2022Updated 3 years ago
- CAMITAX: Taxon labels for microbial genomes☆30Dec 14, 2023Updated 2 years ago
- ☆15Jun 10, 2020Updated 5 years ago
- Removing PCR duplicates for sequencing reads.☆14Sep 8, 2020Updated 5 years ago
- Tools for generating and decoding error-correcting DNA barcodes☆15Feb 15, 2022Updated 4 years ago
- ViroBLAST standalone package☆16Apr 4, 2024Updated last year
- MetaEuk - sensitive, high-throughput gene discovery and annotation for large-scale eukaryotic metagenomics☆202Aug 25, 2025Updated 5 months ago
- The MARVEL assembler☆79Jul 7, 2023Updated 2 years ago
- Workflow to assign Taxonomy to a bacteriophage genome isolate☆38Mar 25, 2025Updated 10 months ago
- A tool for exploring large trees in the browser☆119Feb 4, 2026Updated last week
- An accurate GFF3/GTF lift over pipeline☆526Aug 1, 2023Updated 2 years ago
- GraphMap - A highly sensitive and accurate mapper for long, error-prone reads http://www.nature.com/ncomms/2016/160415/ncomms11307/full/n…☆70Aug 30, 2022Updated 3 years ago
- Tool to plot synteny and structural rearrangements between genomes☆341Apr 7, 2025Updated 10 months ago
- seqcover allows users to view coverage for hundreds of genes and dozens of samples☆52Apr 9, 2021Updated 4 years ago
- Maximum likelihood inference of time stamped phylogenies and ancestral reconstruction☆249Updated this week
- Gene cluster comparison figure generator☆635Dec 22, 2025Updated last month
- A flexible pipeline for complete analysis of bacterial genomes☆499Dec 19, 2025Updated last month
- ☆13Dec 16, 2021Updated 4 years ago
- Split a BAM file by haplotype support☆16Dec 13, 2017Updated 8 years ago
- TransposonPSI involves a PSI-blast search of a protein or nucleotide sequence against a set of profiles of proteins corresponding to majo…☆14Apr 28, 2020Updated 5 years ago