linxingchen / cobra
A tool to raise the quality of viral genomes assembled from short-read metagenomes via resolving and joining of contigs fragmented during de novo assembly.
☆66Updated 7 months ago
Alternatives and similar repositories for cobra:
Users that are interested in cobra are comparing it to the libraries listed below
- Local version of the virus identification and analysis web server (tool set)☆44Updated 3 weeks ago
- Horizontal gene transfer (HGT) identification pipeline☆57Updated last year
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆46Updated 3 years ago
- Binning Virus Genomes from Metagenomes☆62Updated 2 years ago
- A wrapper to identify, bin, classify, and predict host-viral relationship for viruses☆71Updated 3 months ago
- ☆28Updated last year
- Reference-quality genome reconstruction from complex metagenomes (or bacterial isolates) using only Nanopore long reads or both long and …☆32Updated last year
- ☆50Updated 11 months ago
- ☆51Updated last year
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated 7 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 9 months ago
- ARGs-OAP: Online Analysis Pipeline for Antibiotic Resistance Genes Detection from Metagenomic Data Using an Integrated Structured ARG Dat…☆53Updated 2 weeks ago
- code repo for mobileOG-db☆34Updated 2 months ago
- An accurate and sensitive bacterial plasmid identification tool based on deep machine-learning of shared k-mers and genomic features.☆43Updated last year
- Python code for versatile Functional Ontology Assignments for Metagenomes searching via Hidden Markov Model (HMM) with environmental focu…☆55Updated 3 weeks ago
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆46Updated 4 years ago
- MetaCompare☆17Updated last year
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆116Updated last year
- Insertion sequences (Insertion Element) [https://en.wikipedia.org/wiki/Insertion_sequence] collected from ISfinder (https://isfinder.biot…☆64Updated 4 years ago
- zol (& fai): large-scale targeted detection and evolutionary investigation of gene clusters (i.e. BGCs, phages, etc.)☆58Updated last month
- Downstream processing of VAMB binning for Viral Elucidation☆48Updated 8 months ago
- Reorients assembled microbial sequences☆115Updated last week
- ☆48Updated 4 years ago
- EzAAI - High Throughput Prokaryotic AAI Calculator☆38Updated 5 months ago
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆59Updated 3 years ago
- Find endogenous viral elements in genomes☆12Updated last month
- ☆68Updated 3 weeks ago
- GTDB taxonomy taxdump files with trackable TaxIds☆52Updated 11 months ago
- A pipeline for nanopore long-read metagenomic analysis.☆27Updated 3 months ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆62Updated 6 months ago