linsalrob / partieLinks
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.
☆26Updated 2 years ago
Alternatives and similar repositories for partie
Users that are interested in partie are comparing it to the libraries listed below
Sorting:
- De novo Extraction of Strains from MetAgeNomes☆70Updated 5 years ago
- A method of assessing sequence complexity based on kmer frequencies☆32Updated 7 years ago
- Extract lineage CSVs from NCBI for use with sourmash lca.☆29Updated last year
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Toolkit for establishing, updating, and validating GTDB species clusters☆21Updated last month
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago
- k-mer based Pipeline to identify the Serotype from Illumina NGS reads☆24Updated 2 years ago
- StrainEst - abundance estimation of strains☆21Updated 5 years ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- Assign taxonomic ranks based on evolutionary divergence.☆23Updated 3 years ago
- Interactive, web tool for exploring pan-genome of bacterial strains☆46Updated 2 years ago
- Simulate metagenomic short reads from one or more populations.☆26Updated 5 months ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆25Updated last year
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆22Updated 7 years ago
- Utility program for extracting sequences from a fasta/fastq file☆36Updated 6 months ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- CAMITAX: Taxon labels for microbial genomes☆30Updated last year
- strain-level analysis tools☆38Updated 8 months ago
- OPAL: Open-community Profiling Assessment tooL☆29Updated 6 months ago
- Metagenomic binning suite☆29Updated 2 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Updated 4 years ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Strain Resolution ON Graphs☆48Updated last year
- Metagenomic profiling and phylogenetic distances via common kmers☆42Updated 4 years ago
- ☆53Updated 4 years ago
- Locus and lineage tests for bacterial GWAS☆29Updated 7 years ago
- Strain Prediction and Analysis with Representative SEquence☆20Updated 7 months ago