Finn-Lab / MAG_Snakemake_wfLinks
Recovery of prokaryotic genomes from shotgun metagenomic sequencing data
☆60Updated 4 years ago
Alternatives and similar repositories for MAG_Snakemake_wf
Users that are interested in MAG_Snakemake_wf are comparing it to the libraries listed below
Sorting:
- Horizontal gene transfer (HGT) identification pipeline☆59Updated 2 years ago
- A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during…☆70Updated 10 months ago
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆47Updated 4 years ago
- ☆52Updated last year
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆46Updated 3 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆30Updated 5 years ago
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆58Updated 2 months ago
- ☆49Updated 4 years ago
- A pipeline for nanopore long-read metagenomic analysis.☆38Updated last month
- All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")☆74Updated 2 years ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆47Updated 2 months ago
- Binning Virus Genomes from Metagenomes☆65Updated 2 years ago
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated 10 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆44Updated 2 years ago
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆32Updated last year
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆73Updated 6 months ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆83Updated last month
- scripts for estimating bacteria replication rates based on population genome copy number variation☆72Updated 5 years ago
- CGView is a Java package for generating high-quality, zoomable maps of circular genomes.☆44Updated 11 months ago
- ☆54Updated last year
- ☆82Updated last year
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆55Updated 3 years ago
- code repo for mobileOG-db☆39Updated 3 weeks ago
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆54Updated 3 months ago
- A toolbox for comparative genomics.☆104Updated 4 years ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆67Updated last month
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆71Updated last year
- Detection of pseudogene candidates in bacterial and archaeal genomes.☆49Updated last year
- PanPhlAn is a strain-level metagenomic profiling tool for identifying the gene composition of individual strains in metagenomic samples☆45Updated last year
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆68Updated 4 years ago