transcript / SAMSA
Programs and documentation for the SAMSA pipeline, version 1.0
☆15Updated 5 years ago
Alternatives and similar repositories for SAMSA:
Users that are interested in SAMSA are comparing it to the libraries listed below
- Merge transcriptome assemblies☆30Updated 8 years ago
- Code for nanopore paper☆33Updated 9 years ago
- Public Health England SNP calling pipeline.☆36Updated 6 years ago
- ☆23Updated 6 years ago
- Experimental pipeline for correcting nanopore reads☆39Updated 7 years ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆25Updated 8 months ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆46Updated 2 years ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- Assembly by Reduced Complexity (ARC)☆41Updated 8 years ago
- Rank-based Gene Ontology analysis of gene expression data☆40Updated 2 years ago
- k-SLAM ultra fast alignment and taxonomic classification of metagenomic datasets☆23Updated 6 years ago
- Using kallisto for metagenomic analysis☆50Updated 8 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- Automatically optimise three of Velvet's assembly parameters.☆47Updated 2 years ago
- Horizontal Gene Transfer Detection by Mapping Sequencing Reads☆21Updated 7 years ago
- Interactive tools for metagenome visualization and binning in R☆28Updated 6 years ago
- Indels are not ideal - quick test for interrupted ORFs in bacterial/microbial genomes☆53Updated last year
- Guide to transcriptome assembly & analysis☆21Updated 7 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆74Updated 8 years ago
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆37Updated last year
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 3 years ago
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 7 years ago
- Three bacterial GWAS methods all rolled into one easy-to-use R package☆19Updated 9 months ago
- Advanced metagenomic Sequence Analysis in R☆15Updated 6 years ago
- ☆17Updated 6 years ago
- mBin: a methylation-based binning framework for metagenomic SMRT sequencing reads☆25Updated 2 years ago
- Hagfish - assess an assembly through creative use of coverage plots☆36Updated 12 years ago
- OPAL: Open-community Profiling Assessment tooL☆27Updated this week
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Reproducible Analyses accompanying DADA2 + PacBio Manuscript☆31Updated 4 years ago