GlobalPathogenAnalysisService / read-it-and-keep
Read contamination removal
☆24Updated last year
Alternatives and similar repositories for read-it-and-keep:
Users that are interested in read-it-and-keep are comparing it to the libraries listed below
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- QA/QC pipeline for a MiSeq/HiSeq/Ion Torrent/assembly-only run☆11Updated 3 months ago
- Variant call verification☆16Updated last month
- TAXnomic Profile Aggregation and STAndardisation☆35Updated 4 months ago
- Output FASTQ summary statistics in JSON format☆29Updated 2 years ago
- 🍊 💫 Trim, circularise and orient long read bacterial genome assemblies☆26Updated 5 years ago
- Remove human reads from a sequencing run☆37Updated 5 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆15Updated 6 years ago
- BACTpipe: An assembly and annotation pipeline for bacterial genomics☆20Updated 3 months ago
- Strain-level abundances estimation in metagenomic samples using variation graphs☆25Updated 2 years ago
- ☆13Updated 3 years ago
- transposable element typing pipeline☆17Updated 11 months ago
- Find Unique genomic Regions☆29Updated last month
- Mycobacterium tuberculosis genomic analysis from Nanopore sequencing data☆11Updated 8 months ago
- ☆29Updated last year
- Assign genotypes to Salmonella Typhi genomes based on VCF files (mapped to Typhi CT18 reference genome)☆24Updated 5 months ago
- ☆18Updated last month
- A method of assessing sequence complexity based on kmer frequencies☆31Updated 6 years ago
- kASA - k-Mer Analysis of Sequences based on Amino acid-like encoding☆23Updated last year
- Code to create a PRG from a Multiple Sequence Alignment file☆23Updated 11 months ago
- Genome size estimation from long read overlaps☆49Updated 2 months ago
- Mandrake 🌿/👨🔬🦆 – Fast visualisation of the population structure of pathogens using Stochastic Cluster Embedding☆36Updated this week
- CFSAN Shigella Typing Pipeline☆14Updated last year
- ☆17Updated 8 months ago
- software to identify primers that can distinguish genomes☆21Updated last month
- Tutorial for bacterial GWAS pipline and bugwas, created for Bodega Bay 2016 NGS workshop☆18Updated 9 years ago
- A pipeline for bioinformatics analysis of bacterial genomes☆19Updated 8 months ago
- An `R` package for various phylogenetic and evolutionary biology data manipulations☆12Updated 6 years ago
- Get microbial sequence data easier and faster☆28Updated 5 years ago