aineniamh / squirrel
☆12Updated this week
Alternatives and similar repositories for squirrel
Users that are interested in squirrel are comparing it to the libraries listed below
Sorting:
- ☆44Updated 3 weeks ago
- Phylogenetic maximum representation sampling: choosing most representative strains or taxa☆38Updated last month
- MycoSNP: Whole Genome Sequencing Analysis of Fungal Isolates☆55Updated 2 weeks ago
- An SRA tool that takes as input local fastq file from a clinical infection sample, identifies and removes any significant human read, and…☆47Updated last year
- A Python implementation of the OrthoANI algorithm for nucleotide identity measurement.☆25Updated 3 weeks ago
- Split k-mer analysis – version 2☆83Updated 3 months ago
- whole genome MLST analysis☆42Updated last month
- Remove contaminated contigs from genomes using k-mers and taxonomies.☆56Updated last year
- Correct and scaffold assemblies using long reads☆51Updated last year
- Fast pairwise transmission inference from single genome and/or metagenomic data☆21Updated 7 months ago
- Intra-species bacterial contamination detection☆25Updated 3 months ago
- Influenza genome analysis Nextflow workflow☆26Updated last month
- Design degenerated primers on highly variable alignments for full genome sequencing or qPCR. Specifically developed for viruses.☆36Updated 2 months ago
- Automated strain separation of low-complexity metagenomes☆51Updated 3 years ago
- A surveillance-oriented tool to strengthen the linkage between pathogen genetic clusters and epidemiological data☆33Updated 5 months ago
- Recombination-free trees☆58Updated last month
- Plasmid analysis using rearrangement distances☆42Updated 5 months ago
- A k-mer based program for the identification of known plasmids from whole-genome sequencing reads☆35Updated 4 years ago
- Detection of incorrectly labeled sequences across kingdoms☆85Updated 2 years ago
- MetaGeneMark-2: Improved Gene Prediction in Metagenomes☆21Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genes☆35Updated 2 weeks ago
- Strain-level haplotyping for metagenomes with short or long-reads.☆51Updated last month
- ☆17Updated 3 weeks ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformatics☆17Updated 9 months ago
- ☆29Updated 3 weeks ago
- A pipeline for bioinformatics analysis of bacterial genomes☆28Updated last week
- Fast and space-efficient taxonomic classification of long reads☆43Updated this week
- UPHL's Reference Free Pipeline☆26Updated this week
- a tool to filter sites in a FASTA-format whole-genome pseudo-alignment☆59Updated 2 months ago
- Overview of our data for microbial genomic benchmarking☆21Updated last week