maxlcummins / pipelordLinks
A microbial genomic analysis pipeline used by the Djordjevic Lab
β13Updated 11 months ago
Alternatives and similar repositories for pipelord
Users that are interested in pipelord are comparing it to the libraries listed below
Sorting:
- Fast pairwise transmission inference from single genome and/or metagenomic dataβ22Updated 5 months ago
- Population analysis PIPEline π π§¬β22Updated last week
- ccfind - circular complete genome finder with clues of terminal redundancyβ16Updated 5 years ago
- π𧬠GraphBin-Tk: assembly graph-based metagenomic binning toolkitβ22Updated 7 months ago
- β24Updated last week
- Microbial agile accurate SNP Typerβ30Updated 2 years ago
- Strain-level haplotyping for metagenomes with short or long-reads.β63Updated 9 months ago
- Parallel/Homoplasic SNP Finderβ21Updated 2 years ago
- Reproducible scripts and notebooks for 2019 paper on population genetics in metagenomesβ16Updated 5 years ago
- Masks recombination as detected by ClonalFrameML or Gubbins and draws an SVGβ21Updated 6 years ago
- Intra-species bacterial contamination detectionβ25Updated 11 months ago
- Rapid and simple taxonomic profiling of genome and metagenome contigsβ29Updated 2 years ago
- Mandrake πΏ/π¨βπ¬π¦ β Fast visualisation of the population structure of pathogens using Stochastic Cluster Embeddingβ39Updated 10 months ago
- Olivar: towards automated variant aware primer design for multiplex tiled amplicon sequencing of pathogensβ36Updated last month
- PowerBacGWAS: Power calculations for Bacterial GWASβ13Updated 3 years ago
- Miscellaneous Perl scripts from 20 years in microbial bioinformaticsβ18Updated last year
- Melon: metagenomic long-read-based taxonomic identification and quantification using marker genesβ35Updated 8 months ago
- The Whole Genome Sequencing Coverage Plot (wgscovplot) is a tool to generate HTML Interactive Coverage Plot given coverage depth informatβ¦β19Updated last year
- viralFlye pipelineβ18Updated last year
- Influenza data pipeline to automate genotyping assignmentβ38Updated 2 months ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomesβ15Updated 7 years ago
- Metagenomic Intra-Species Diversity Analysis (MIDAS)β41Updated last year
- A pipeline based on EMU, a taxonomic profiler optimized for long 16S rRNA reads.β17Updated last month
- An R package identifying horizontal gene co-transfer between bacteria using association analysis and whole-genome sequencesβ27Updated 3 years ago
- Rapid discovery of novel prophages using biological feature engineering and machine learningβ36Updated last year
- Organism-specific interpretation of AMR genotypesβ15Updated last year
- A mathematically characterized hypothesis test for organism presence/absence in a metagenomeβ34Updated this week
- Plasmid analysis using rearrangement distancesβ49Updated 4 months ago
- Interpretative standards for AMR genotypesβ26Updated this week
- A Hierarchical Approach to Pangenomics Inferenceβ13Updated last year