LivGen / LMATLinks
Livermore Metagenomic Analysis Toolkit
☆14Updated 5 years ago
Alternatives and similar repositories for LMAT
Users that are interested in LMAT are comparing it to the libraries listed below
Sorting:
- ☆30Updated 2 years ago
- Pan-Genomic Matching Statistics☆55Updated last year
- strain-level analysis tools☆39Updated last year
- Fast k-mer based tool for multi locus sequence typing (MLST)☆45Updated 5 years ago
- ♥ Fast and Accurate Estimation of Evolutionary Distances☆29Updated 9 months ago
- ☆30Updated last year
- Detection of incorrectly labeled sequences across kingdoms☆88Updated 3 years ago
- MutTui pipeline to reconstruct mutational spectra for bacterial and viral datasets☆33Updated last year
- Strain-level haplotyping for metagenomes with short or long-reads.☆63Updated 9 months ago
- Phylogenetic compression of extremely large genome collections [661k ↘𝟭𝟲𝗚𝗶𝗕 | BIGSIdata ↘𝟰𝟴𝗚𝗶𝗕 | AllTheBact'23 ↘𝟳𝟱𝗚𝗶𝗕]☆46Updated 10 months ago
- Extremely fast and accurate Nanopore demultiplexing☆77Updated 2 weeks ago
- Remove lambda phage reads from a fastq file☆29Updated 3 years ago
- Quantifying the significance of genetic variation using probabilistic profile-based methods.☆19Updated 4 years ago
- A nextflow pipeline for decontamination of short reads, long reads and contigs☆55Updated 7 months ago
- Fast and space-efficient taxonomic classification of long reads☆43Updated 5 months ago
- a Contig Alignment Tool for Pairwise Assembly Comparison☆12Updated 6 years ago
- VIRULIGN: fast codon-correct alignment and annotation of viral genomes☆35Updated 4 years ago
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆48Updated this week
- ☯️🧬 Refined and Overlapped Binning of Metagenomic Contigs Using Assembly Graphs☆37Updated 3 months ago
- Rapid discovery of novel prophages using biological feature engineering and machine learning☆36Updated last year
- Better and faster Rust implementation of the FragGeneScan gene prediction model for short and error-prone reads.☆30Updated this week
- Blast2Bam uses the XML results of Blastn, the reference and the fastQ or fasta file(s) to output a SAM file.☆49Updated 4 years ago
- A pipeline for high-quality bacterial genome construction using ONT sequencing☆38Updated 3 years ago
- Mash MinHash search your nucleotide sequences against a NCBI RefSeq genomes database☆43Updated 5 years ago
- Workflow to rapidly quantify taxa from all domains of life, directly from short-read human gut metagenomes☆71Updated 2 months ago
- Influenza genome analysis Nextflow workflow☆31Updated 4 months ago
- Python package to obtain, parse and explore biological taxonomies (GTDB, NCBI, Silva, Greengenes, OTT)☆47Updated this week
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogens☆37Updated 2 weeks ago
- Fast and accurate tool for calculating Average Nucleotide Identity (ANI) and clustering virus genomes and metagenomes☆97Updated 8 months ago
- A versatile toolkit for k-mers with taxonomic information☆82Updated 5 months ago