transcript / SAMSALinks
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
Sorting:
- Merge transcriptome assemblies☆31Updated 8 years ago
- Experimental pipeline for correcting nanopore reads☆39Updated 8 years ago
- SNP Pipeline is a pipeline for the production of SNP matrices from sequence data used in the phylogenetic analysis of pathogenic organism…☆62Updated 2 years ago
- Tools for making blobplots or Taxon-Annotated-GC-Coverage plots (TAGC plots) to visualise the contents of genome assembly data sets as a …☆47Updated 3 years ago
- FAST: Fast Analysis of Sequences Toolbox☆31Updated 5 years ago
- Phylogenetics between and within hosts at once, all along the genome.☆50Updated 11 months ago
- Converts Prokka GFF3 files to EMBL files for uploading annotated assemblies to EBI☆29Updated 6 years ago
- This is the codebase for Recycler, described in our manuscript: https://academic.oup.com/bioinformatics/article/33/4/475/2623362, by Roye…☆58Updated 4 years ago
- Fast and pretty dotplots for whole genomes assemblies using minimap and R/ggplot2☆76Updated 9 years ago
- EMIRGE reconstructs full length ribosomal genes from short read sequencing data.☆37Updated 2 years ago
- ☆33Updated 8 years ago
- Improve the quality of a denovo assembly by scaffolding and gap filling☆56Updated 4 years ago
- de novo virus assembler of Illumina paired reads☆56Updated 4 years ago
- Code for nanopore paper☆33Updated 10 years ago
- Assembly based core genome SNP alignments for bacteria☆25Updated 5 years ago
- Confirming specific taxonomic groups within your samples.☆19Updated 4 years ago
- Visualize whole genome alignments as linear maps☆73Updated last month
- k-SLAM ultra fast alignment and taxonomic classification of metagenomic datasets☆23Updated 6 years ago
- Understand your transcriptome assembly☆102Updated last year
- Please use mmgenome2 instead. Tools for extracting individual genomes from metagenomes☆27Updated 8 years ago
- transXpress: a Snakemake pipeline for streamlined de novo transcriptome assembly and annotation☆27Updated last year
- Advanced metagenomic Sequence Analysis in R☆15Updated 7 years ago
- Additional tools for analyzing Oxford Nanopore minION data☆17Updated 10 years ago
- Annotate your metagenome assemblies☆11Updated 7 years ago
- Simka and SimkaMin are comparative metagenomics methods dedicated to NGS datasets.☆48Updated 3 years ago
- Calculates the lowest common ancestors of each query sequence in a Blast result☆31Updated 7 years ago
- Automated pipeline for analyses of fungal ITS from the Illumina☆31Updated 4 months ago
- Miscellaneous Bioinformatics scripts etc mostly in Python☆45Updated 3 weeks ago
- Metagenomic species profiling with enhanced coverage of the human gut microbiome☆24Updated last year
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 9 years ago