kwongj / contig-puller
Extracts contigs harbouring a target gene / sequence from assemblies and aligns the contigs around the target sequence
☆13Updated 6 years ago
Related projects ⓘ
Alternatives and complementary repositories for contig-puller
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 3 years ago
- Predicting plasmid contigs from assemblies using single copy marker genes, plasmid genes, kmers - Developed by Linda van der Graaf☆48Updated 6 months ago
- pGWAS and functional filtering pipeline to identify candidate adaptive genetic traits in bacteria☆11Updated 6 years ago
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequences☆24Updated 2 years ago
- ☆17Updated 2 months ago
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆24Updated last week
- EzAAI - High Throughput Prokaryotic AAI Calculator☆36Updated 3 weeks ago
- Gene Absence Presence Identification tool.☆26Updated last year
- Small utility script to submit genomes to PHASTER for phage detection☆23Updated 3 years ago
- Downstream processing of VAMB binning for Viral Elucidation☆46Updated 4 months ago
- Perform taxonomic profiling analyses for long-read shotgun metagenomic datasets. Developed for the Long Read Sequencing Workshop 2022 at …☆13Updated 2 years ago
- Predict plasmids from uncorrected long read data☆39Updated 4 years ago
- post processing of bacterial pangenome gene presence/absence matrices☆51Updated 2 months ago
- A toolkit for exploring prokaryotic methylation and base modifications in nanopore sequencing☆39Updated 3 months ago
- IslandPath standalone software☆31Updated last year
- Identify phage regions in bacterial genomes for masking purposes☆30Updated 5 years ago
- Program to quickly and accurately assemble plasmids in hybrid and long-only sequenced bacterial isolates☆50Updated 6 months ago
- Basic workflow for nanopore sequencing data☆14Updated this week
- Automated strain separation of low-complexity metagenomes☆50Updated 2 years ago
- Structural and functional annotation of eukaryotic metagenome-assembled genomes☆21Updated last year
- Nanomotif - a tool for identifying methylated motifs in metagenomic samples☆23Updated this week
- A tool for removing redundant genomes from a set of assemblies☆68Updated last year
- whole genome MLST analysis☆38Updated 5 months ago
- ☆14Updated last year
- Bioinformatics pipeline for recovery and analysis of metagenome-assembled genomes☆37Updated 4 months ago
- SISTR (Salmonella In Silico Typing Resource) command-line tool☆25Updated last month
- Long read metagenomics practical at EBAME18☆18Updated 6 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆23Updated 6 years ago
- SCAPP is a plasmid assembly tool. This tool is described in our paper: https://microbiomejournal.biomedcentral.com/articles/10.1186/s4016…☆29Updated last year
- Gene-flank analysis tool☆26Updated 6 months ago