PARTIE is a program to partition sequence read archive (SRA) metagenomics data into amplicon and shotgun data sets. The user-supplied annotations of the data sets can not be trusted, and so PARTIE allows automatic separation of the data.
☆25Feb 25, 2023Updated 3 years ago
Alternatives and similar repositories for partie
Users that are interested in partie are comparing it to the libraries listed below
Sorting:
- Multinomial Logistic-Normal Models (really fast)☆20Feb 26, 2025Updated last year
- Get, parse, and extract information from the SRA metadata files☆46Sep 20, 2022Updated 3 years ago
- Using kallisto for metagenomic analysis☆49Jan 12, 2017Updated 9 years ago
- Accurate, resource-frugal and deterministic DNA sequence classifier.☆36Mar 4, 2026Updated 2 weeks ago
- ☆19Dec 6, 2022Updated 3 years ago
- A genome binning method for contig binning, based on semi-supervised spectral clustering method.☆12Nov 21, 2020Updated 5 years ago
- Git mirror of Bioconductor SRAdb package☆23Feb 20, 2018Updated 8 years ago
- A repository with scripts to run pipeline that are commonly used in the Meren Lab☆11Feb 7, 2018Updated 8 years ago
- Metagenomic binning using low-density hashing a support vector machine☆20Oct 2, 2020Updated 5 years ago
- sensitive and precise assembly of short sequencing reads☆163Oct 11, 2024Updated last year
- Genomic Biodiversity Interest Group☆19Jun 7, 2025Updated 9 months ago
- Homebrew tap for formulae to build ARB (http://www.arb-home.de) and related software.☆13Mar 22, 2025Updated last year
- Ancestral Sequence Reconstruction in Python☆14May 9, 2019Updated 6 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Sep 23, 2022Updated 3 years ago
- StrainEst - abundance estimation of strains☆20Jan 17, 2020Updated 6 years ago
- raw data from tax-credit project☆14Sep 19, 2019Updated 6 years ago
- More scalable dereplication for metagenome assembled genomes☆78Mar 8, 2026Updated 2 weeks ago
- syncmer graphs, and perhaps other sorts of sequence graphs☆30Updated this week
- Validate FastQ Files☆36Oct 30, 2018Updated 7 years ago
- Collation of metadata examples and notes for the project☆11Jan 30, 2026Updated last month
- Cenote-Taker2: Discover and Annotate Divergent Viral Contigs (Please use Cenote-Taker 3 instead)☆55Jan 19, 2024Updated 2 years ago
- De novo Extraction of Strains from MetAgeNomes☆72Jun 17, 2020Updated 5 years ago
- Sequencing and analysis of crAssphage regions from around the globe☆18Apr 7, 2020Updated 5 years ago
- Utility program for extracting sequences from a fasta/fastq file☆35Dec 23, 2024Updated last year
- A toolbox for improving metagenome-assembled genomes.☆64Jun 2, 2021Updated 4 years ago
- RNA dependent RNA Polymerase Palmprint Analysis☆12Aug 1, 2024Updated last year
- Accurate, Lightweight Clustering of de novo Transcriptomes using Fragment Equivalence Classes☆31Jun 16, 2024Updated last year
- SAMsift: advanced filtering and tagging of SAM/BAM alignments using Python expressions.☆23Sep 18, 2025Updated 6 months ago
- frame-shift correction for long-read (meta)genomics☆33Dec 11, 2023Updated 2 years ago
- repo for cicese metatranscriptomics workshop, nov 2018☆14Jan 22, 2020Updated 6 years ago
- Monster Lab: teaching the science of sequencing with Lego☆15Sep 14, 2018Updated 7 years ago
- Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!☆179Updated this week
- BinaRena: Interactive Visualization and Binning of Metagenomic Contigs☆33Aug 22, 2024Updated last year
- Long-read mock community experiments☆104Oct 8, 2021Updated 4 years ago
- Clustering cONtigs with COverage and ComposiTion☆137Mar 6, 2020Updated 6 years ago
- Estimate metagenomic coverage and sequence diversity☆59Dec 18, 2025Updated 3 months ago
- This is the codebase for Faucet, described in our manuscript: https://academic.oup.com/bioinformatics/article/34/1/147/4004871, by Roye R…☆18May 21, 2017Updated 8 years ago
- ccfind - circular complete genome finder with clues of terminal redundancy☆16Mar 5, 2026Updated 2 weeks ago
- Bayesian Inferential Regression for Differential Microbiome Analysis☆25Dec 19, 2023Updated 2 years ago