biologger / speciesprimerLinks
The SpeciesPrimer pipeline is intended to help researchers finding specific primer pairs for the detection and quantification of bacterial species in complex ecosystems.
☆43Updated last year
Alternatives and similar repositories for speciesprimer
Users that are interested in speciesprimer are comparing it to the libraries listed below
Sorting:
- Metagenomics-related extended functionalities to samtools☆21Updated last year
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 2 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Course materials for the Genomics Aotearoa Metagenomics Summer School, to be hosted at the University of Auckland in Septermber☆60Updated 9 months ago
- BEAV: Bacterial Element Annotation reVamped☆66Updated 7 months ago
- MetaMLST is a computational tool for in-silico Multi-Locus Sequence Typing from metagenomic data.☆16Updated 2 years ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆46Updated 5 years ago
- Predict plasmids from uncorrected long read data☆40Updated 5 years ago
- ☆25Updated 6 years ago
- Pipeline for Reproducible and Scalable Integration of Metagenomic and Metatranscriptomic Data☆14Updated 3 weeks ago
- Working with the outputs of sourmash in R☆27Updated last year
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆58Updated last year
- Growth Rate Index (GRiD) measures bacterial growth rate from reference genomes (including draft quality genomes) and metagenomic bins at …☆32Updated 5 years ago
- Improvement of metagenome-assembled genomes☆53Updated 5 years ago
- ☆23Updated 7 years ago
- MAG Circularization Method☆33Updated 3 years ago
- CroCoDeEL is a tool that detects cross-sample contamination in shotgun metagenomic data☆24Updated 2 weeks ago
- Estimate metagenomic coverage and sequence diversity☆54Updated 10 months ago
- workflows for offline analysis of 16S rRNA Nanopore data☆13Updated 2 years ago
- gutSMASH☆54Updated 6 months ago
- Sparse Cooccurence Network Investigation for Compositional data☆24Updated 8 months ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago
- SynTracker is a pipeline, designated to determine the biological relatedness of conspecific strains (microbial strains of the same specie…☆31Updated 4 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆49Updated 2 years ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Metagenomics Workshop☆28Updated 8 years ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆44Updated 4 years ago