metatranscriptomics
There are 1 repository under metatranscriptomics topic.
- anvioLanguage:Python 406
- Language:C++ 230
- plass
soedinglab / plass
sensitive and precise assembly of short sequencing reads
Language:C 128 iquasere / KEGGCharter
A tool for representing genomic potential and transcriptomic expression into KEGG pathways
Language:Python 44- MOSCALanguage:Python 32
- Language:Nextflow 15
FEI38750 / MTD
MTD: a unique pipeline for host and meta-transcriptome joint and integrative analyses of RNA-seq data
Language:R 14- Language:HTML 13
nf-core / metatdenovo
Assembly and annotation of metatranscriptomic or metagenomic data for prokaryotic, eukaryotic and viruses.
Language:Nextflow 12KevinMcDonnell6 / chordomics
Interactive visualisation and data annotation for meta-omics data
Language:R 7PNNL-CompBio / perseq
:cake: Per sequence functional classification and taxonomic assignments
Language:HTML 7SilentGene / MultiOmicAnalysis
Genome-centric Multi-omic Analysis Workflow for the Marinimicrobia paper
Language:Shell 7- Language:Python 6
poursalavati / SOVAP
The Soil Virome Analysis Pipeline (SOVAP) is designed to process, analyze, and annotate viromics and metagenomics data using cutting-edge tools, providing valuable insights into the virome and microbial communities found in complex environments, such as soil ecosystems.
Language:Python 6- Language:Nextflow 5
- Language:Python 5
SchlossLab / Jenior_Metatranscriptomics_mSphere_2018
Repository associated with Jenior ML, et al. (2018). mSphere.
Language:R 5- Language:wdl 3
- Language:Python 3
AU-ENVS-Bioinformatics / TotalRNA-Snakemake
A pipeline for TotalRNA analysis
Language:Jupyter Notebook 2raw-lab / metaome_stats
Statistical package for metaome denovo assembly results.
Language:Python 2rjstevick / NBayTNCoystersAnalysis
Scripts for analysis of metatranscriptomic and 16S rRNA amplicon data from wild oysters in Narragansett Bay
Language:R 2erikrikarddaniel / magmap
Nextflow (nf-core) workflow for mapping reads to large collections of genomes.
Language:Nextflow 1dombraccia / H2S
Code bank for analysis performed in the manuscript" "The capacity to produce hydrogen sulfide (H2S) via cysteine degradation is ubiquitous in the human gut microbiome"
Language:R 0genomeud / SRA-ome
Code for systematically classify data in SRA according to all the taxa present in the reads (SRA-metagenome)
Language:C++ 0hermidalc / dragonfish
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
Language:Python 0jmpolinski / Moytirra-Hydrothermal-Vent-Plume
A primary goal of this research was to characterize vent plume biogeography across a spatial gradient. This study was done in collaboration with OceanX during the 2021 Young Explorers Program.
Language:R 0metavannier / metatranscriptomics-bulkrnaseq_workflow
This workflow performs a metatranscriptomics and bulk RNAseq analysis from the sequencing output data to the differential expression analyses.
Language:Python 0MiriamMarinS / NibenMetaTranscriptomics
Meta Transcriptomic study of Nicotiana benthamiana to look for high expressed locations in the genome.
Language:Jupyter Notebook 0- Language:Shell 0
Study of farmed oysters and nitrogen cycling in Point Judith Pond, RI. Scripts for analysis of 16S rRNA amplicon and metatranscriptomic data.
Language:HTML 0gabrielvpina / ViewVir
ViewVir - A pipeline to visualize viral metatranscriprome data
Language:Rmuzafferarikan / gNOMO2
gNOMO2 allows integrated multi-omics analyses of microbiomes
Language:Pythonsablokgaurav / neural-network-metagenomics
a function to generate the hidden layers from the given fasta and the expression files. it takes the replicate columns and then calculates the expression and length as a hidden layer. Applying to the transcriptomics, meta transcriptomics and other expression datasets
Language:PythonWEHI-ResearchComputing / samsa2-nf
Nextflow translation for SAMSA2 metatranscriptomics pipeline. Tailored for running on WEHI Milton.
Language:Python
