iqbal-lab-org / viridianLinks
☆21Updated 3 months ago
Alternatives and similar repositories for viridian
Users that are interested in viridian are comparing it to the libraries listed below
Sorting:
- Genome size estimation from long read overlaps☆57Updated 2 months ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated 2 months ago
- Standalone Python re-implementation of the POLCA polisher from MaSuRCA☆36Updated 3 months ago
- A pipeline for bioinformatics analysis of bacterial genomes☆30Updated this week
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 8 months ago
- UPHL's Reference Free Pipeline☆26Updated last month
- Colinear block visualisation tool☆31Updated last year
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated 2 months ago
- A mathematically characterized hypothesis test for organism presence/absence in a metagenome☆30Updated last month
- In silico taxonomic classification of Bacillus cereus group genomes using whole-genome sequencing data☆19Updated last year
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated last week
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆37Updated 2 months ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 11 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated last month
- REcombination BARcode detector.☆15Updated last year
- Summarise nucleotide counts at a set of positions in a BAM file to search for mixtures☆13Updated 3 years ago
- Microbial agile accurate SNP Typer☆29Updated last year
- ☆20Updated 3 weeks ago
- skDER & CiDDER: efficient & high-resolution dereplication of microbial genomes.☆45Updated last month
- CFSAN Shigella Typing Pipeline☆14Updated last year
- Predict MLST directly from uncorrected long reads☆27Updated 3 years ago
- Intra-species bacterial contamination detection☆25Updated 4 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 7 years ago
- GRIMER performs analysis of microbiome studies and generates a portable and interactive dashboard integrating annotation, taxonomy and me…☆23Updated 2 years ago
- Bacterial GWAS analysis☆40Updated last month
- A simple pipeline for bacterial assembly and quality control☆17Updated this week
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informat…☆19Updated last year
- Fast viral consensus genome reconstruction☆23Updated 3 weeks ago
- Python package to plot a phylogenetic tree on an existing matplotlib axis.☆22Updated 3 months ago
- A new high-resolution long-read metagenome assembler for even noisy reads☆73Updated last month