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.
☆45Updated last year
Alternatives and similar repositories for speciesprimer
Users that are interested in speciesprimer are comparing it to the libraries listed below
Sorting:
- BEAV: Bacterial Element Annotation reVamped☆72Updated 4 months ago
- Snakemake pipeline for downstream analysis of metagenome-assembled genomes (MAGs) (pronounced mag-pie)☆62Updated 2 years ago
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆46Updated 2 years ago
- A tool for generating bacterial genomes from metagenomes with nanopore long read sequencing☆69Updated 4 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆73Updated 5 years ago
- Ley Lab MetaGenome Profiler DataBase generator☆50Updated 3 years ago
- PATO is a R package designed to analyze pangenomes (set of genomes) intra or inter species.☆62Updated 2 years ago
- The Prokaryotic Genomics and Comparative Genomics Analysis Pipeline☆41Updated 3 years ago
- MicrobeCensus estimates the average genome size of microbial communities from metagenomic data☆47Updated 5 years ago
- A toolkit for prokaryotic comparative genomics☆51Updated 2 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆43Updated 5 years ago
- An R package designed for drawing gene arrow maps☆93Updated 2 months ago
- Metagenomics-related extended functionalities to samtools☆22Updated 2 years ago
- A pipeline to select optimal markers for microbial phylogenomics and species tree estimation using the multispecies coalescent and concat…☆59Updated 2 weeks ago
- Improvement of metagenome-assembled genomes☆54Updated 5 years ago
- a pipeline for reconciliation of phylogenetic histories within a bacterial pangenome☆50Updated 3 years ago
- ☆40Updated 4 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- Automatic Assembly For The Fungi☆25Updated 3 months ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆60Updated last year
- GTDB taxonomy taxdump files with trackable TaxIds☆56Updated 7 months ago
- AMR++ is a bioinformatic pipeline meant to aid in the analysis of raw sequencing reads to characterize the profile of antimicrobial resis…☆45Updated 2 weeks ago
- ☆81Updated 3 weeks ago
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- Computational workflows for metagenomics tasks, by the Bhatt lab☆47Updated 2 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆57Updated 3 years ago
- Using ggtree to build phylogenetic trees☆50Updated last year
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆70Updated 3 weeks ago
- Dual barcode and primer demultiplexing for MinION sequenced reads☆41Updated 2 years ago