bjtully / BioData
All of my various bioinformatic scripts fit for public consumption (loosely defining "fit")
☆71Updated last year
Alternatives and similar repositories for BioData:
Users that are interested in BioData are comparing it to the libraries listed below
- MuDoGeR makes the recovery of genomes from prokaryotes, viruses, and eukaryotes from metagenomes easy.☆88Updated 5 months ago
- Classification of Eukaryotic and Prokaryotic sequences from metagenomic datasets☆69Updated 7 months ago
- Analysis of metagenomic shotgun sequences including assembly, speciation, ARG discovery and more☆27Updated last year
- A toolbox for comparative genomics.☆100Updated 3 years ago
- Horizontal gene transfer (HGT) identification pipeline☆56Updated last year
- DDBJ Fast Annotation and Submission Tool☆78Updated last month
- A toolbox for identifying mobile genetic element (MGE) insertions from short-read sequencing data of bacterial isolates.☆114Updated last year
- Recovery of prokaryotic genomes from shotgun metagenomic sequencing data☆57Updated 3 years ago
- Create BIOM-format tables (http://biom-format.org) from Kraken output (http://ccb.jhu.edu/software/kraken/, https://github.com/DerrickWoo…☆50Updated 2 years ago
- SAMSA pipeline, version 2.0. An open-source metatranscriptomics pipeline for analyzing microbiome data, built around DIAMOND and customi…☆57Updated 10 months ago
- Contains a fasta format database of a large variety of mobile genetic elements and an annotation file☆43Updated 3 years ago
- A tool for drawing ANI clustermap between all-vs-all microbial genomes☆72Updated 4 months ago
- A tool for classifying prokaryote protein sequences into COG(Cluster of Orthologous Genes) functional category☆59Updated 4 months ago
- ☆79Updated last year
- Bioinformatics Tools☆81Updated 2 weeks ago
- Materials and presentation for the 2023 ISB Microbiome course.☆24Updated 4 months ago
- From genomes to phenotypes: Traitar, the microbial trait analyzer☆57Updated 5 years ago
- ☆41Updated last week
- This is the source code for multisamples ARGs profiling using SARG2.0 database☆46Updated 3 years ago
- Perl script for simulating PCR reactions. Extract sequences from a query based on primer sequences.☆40Updated 4 years ago
- scripts for estimating bacteria replication rates based on population genome copy number variation☆70Updated 5 years ago
- Bash pipeline for analysis of ONT full-length 16S sequences in QIIME2☆28Updated 4 years ago
- Nextflow pipeline to analyze PacBio HiFi full-length 16S data☆66Updated last month
- A python pipeline to identify IS (Insertion Sequence) elements in genome and metagenome☆88Updated last year
- IS mapping software☆53Updated 3 years ago
- Assembly methods for nanopore-based metagenomic sequencing: a comparative study☆18Updated 4 years ago
- Scripts and tutorials on how to assemble individual microbial genomes from metagenomes☆80Updated 8 years ago
- phyloFlash - A pipeline to rapidly reconstruct the SSU rRNAs and explore phylogenetic composition of an illumina (meta)genomic dataset.☆81Updated last year
- Supporting code for uncultivated gut virus manuscript☆68Updated last year
- Reorients assembled microbial sequences☆107Updated 2 weeks ago