A convenient pipeline for processing of multi-strain bacterial RNA-Seq experiments
☆11Dec 1, 2020Updated 5 years ago
Alternatives and similar repositories for multi-bacpipe
Users that are interested in multi-bacpipe are comparing it to the libraries listed below
Sorting:
- A nextflow pipeline for performing bacterial RNA-Seq data analysis.☆12Oct 14, 2025Updated 5 months ago
- Various scripts for efficient processing of 10k Salmonella genomes☆16Sep 16, 2021Updated 4 years ago
- A pan-cancer analysis of the microbiome in metastatic cancer (Battaglia et. al, Cell, 2024)☆14Apr 9, 2024Updated last year
- Companion repository for the human variant calling pipeline comparison paper☆12Feb 21, 2022Updated 4 years ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics☆20Jan 13, 2019Updated 7 years ago
- Updated Kraken DB install scripts to cope with new-ish NCBI structure☆15Jan 25, 2020Updated 6 years ago
- Draw pan- and core-genome curves from proteinortho output☆10Oct 26, 2023Updated 2 years ago
- Plot bacterial gene maps and genome comparison plots from command line with genoPlotR and GenomeDiagram☆12Mar 10, 2026Updated last week
- ☆12Apr 5, 2022Updated 3 years ago
- Peptide Virtual Screening Pipeline☆14Jul 3, 2019Updated 6 years ago
- ☆14Mar 8, 2021Updated 5 years ago
- A toolking for cell type hierarchies: marker selection & consistent classification☆22Nov 26, 2023Updated 2 years ago
- Wrapper for the genoPlotR R package. This wrapper makes phylogeny, genbank files and blast comparisons that is needed for the genoPLotR p…☆14Oct 5, 2021Updated 4 years ago
- Webpage of the "Introduction to RNA-Seq: From quality control to pathway analysis - streamed" SIB course.☆16Sep 29, 2025Updated 5 months ago
- Compute strain abundance in a defined microbial community☆10Jul 27, 2023Updated 2 years ago
- ☆23Apr 17, 2020Updated 5 years ago
- viGEN - A bioinformatics pipeline for the exploration of viral RNA in human NGS data☆28Oct 8, 2024Updated last year
- https://weeklykagglenews.substack.com☆24Dec 31, 2022Updated 3 years ago
- Pan-genome Analysis☆12May 4, 2025Updated 10 months ago
- MGnify API toolkit☆19Jan 31, 2025Updated last year
- A Python+Web tool visualizes ward placements and smoke usage from professional matches using DOTABUFF data. It creates interactive heatma…☆22Nov 16, 2025Updated 4 months ago
- An R package to fit and plot Species Sensitivity Distributions (SSDs)☆36Updated this week
- Instantaneous Metagenome Taxonomic Profiling with MetaKSSD☆24Nov 3, 2025Updated 4 months ago
- convert a multi-sample VCF file to a multiple sequence alignment (C)☆15Feb 15, 2019Updated 7 years ago
- A tool for concatenating multiple fasta alignments for supermatrix phylogenetic analyses☆24Mar 7, 2025Updated last year
- Python3 wrapper for parallelized gene prediction using Prodigal☆11Mar 3, 2023Updated 3 years ago
- ☆11Feb 9, 2024Updated 2 years ago
- Spatial Phylogenetic Reconstruction of Evolutionary Dynamics 3☆17Apr 28, 2023Updated 2 years ago
- gutSMASH☆58Oct 3, 2025Updated 5 months ago
- ☆19Jun 1, 2022Updated 3 years ago
- Strain Prediction and Analysis with Representative SEquence☆19Dec 8, 2024Updated last year
- Quasitools is a collection of tools for analysing viral quasispecies data.☆27Nov 25, 2021Updated 4 years ago
- 将速铂下载工具进行封装,以便高效方便地批量下载SRA测序数据。☆11Sep 1, 2020Updated 5 years ago
- a user-friendly and flexible pipeline for prokaryote genome analysis☆69Updated this week
- ☆15Jul 14, 2025Updated 8 months ago
- Application of deep generative model discovers novel and diverse functional peptides against microbial resistance☆11Dec 22, 2022Updated 3 years ago
- ☆84Sep 13, 2023Updated 2 years ago
- AMPDeep: Hemolytic Activity Prediction of Antimicrobial Peptides using Transfer Learning☆13Aug 15, 2022Updated 3 years ago
- An R package for displaying binary trees, aiming to represent multiple layers of information on dendrogram leaves.☆15Feb 18, 2026Updated last month