Lafond-LapalmeJ / MCSC_DecontaminationLinks
Scripts and documentations on the MCSC decontamination method
☆9Updated 2 years ago
Alternatives and similar repositories for MCSC_Decontamination
Users that are interested in MCSC_Decontamination are comparing it to the libraries listed below
Sorting:
- Workflow for detecting genome-wide horizontal gene transfers☆10Updated 7 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- genomic alignment similarity search tool☆18Updated last month
- Interactive, web tool for exploring pan-genome of bacterial strains☆45Updated 2 years ago
- A tool to identify and annotate homoplasies on a phylogeny and sequence alignment☆20Updated 4 years ago
- Annotated Genome Optimization Using Transcriptome Information☆20Updated 5 years ago
- GATB Minia assembly pipeline☆30Updated 2 years ago
- Improved Phased Assembler☆28Updated 3 years ago
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- reference-based long read assemblies of bacterial genomes☆49Updated 3 years ago
- use paired-end transcriptome reads to scaffold genomes☆11Updated 6 years ago
- Software that separates very close sequences that have been collapsed during assembly. Uses only long reads.☆35Updated 2 months ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆57Updated 4 years ago
- STAG: Species Tree from All Genes☆34Updated 6 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Haplotype-aware genome assembly toolkit☆29Updated 5 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆42Updated 4 years ago
- Rapid and simple taxonomic profiling of genome and metagenome contigs☆28Updated 2 years ago
- ZGA prokaryotic genome assembly and annotation pipeline☆12Updated 9 months ago
- Phylogeny Enhanded Prediction of PAN-genome☆40Updated 4 years ago
- ☆32Updated 4 years ago
- A pipeline for performing genome-wide association tests for bacterial genomes.☆27Updated 7 years ago
- A tool for recovering synteny blocks from multiple alignment☆30Updated 3 years ago
- INNUENDO quality control of reads, de novo assembly and contigs quality assessment, and possible contamination search☆15Updated 2 years ago
- Gene-flank analysis tool☆27Updated 6 months ago
- ☆36Updated 3 years ago
- ☆26Updated 5 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVG☆20Updated 6 years ago
- 🔬🐛 Rapid 16s rRNA identification from isolate FASTQ files☆24Updated 7 years ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆21Updated 7 years ago