Metatranscriptomics is the analysis of the RNA transcripts being expressed by a community at a given point of time (Poretsky et al., 2005).

Desktop app
G T A T C G C T A rRNAFilter rRNAFilter

rRNAFilter

A filtering tool to remove rRNA reads from metatranscriptomic datasets.…

A filtering tool to remove rRNA reads from metatranscriptomic datasets. rRNAFilter does not require any prior knowledge of known rRNA sequences. It filters rRNA reads based on the difference of the…

Desktop app
G T A T C G C T A Generative Inference… Generative Inference of Sequence Taxonomy

GIST Generative Inference of Sequence Taxonomy

A package containing a taxonomic classifier. GIST is focused specifically on…

A package containing a taxonomic classifier. GIST is focused specifically on the problem of annotating short (76 nucleotides and higher), unassembled reads with little or no quality filtering. It…

Desktop app
G T A T C G C T A Simple Analysis of… Simple Analysis of Metatranscriptome Sequence…

SAMSA Simple Analysis of Metatranscriptome Sequence Annotations

A bioinformatics pipeline designed to fully analyze and characterize activity…

A bioinformatics pipeline designed to fully analyze and characterize activity within a metatranscriptome, illustrating relative level of activity split by both organism and functional category. There…

Desktop app
G T A T C G C T A metaModules metaModules

metaModules

A methodology for comparative metatranscriptomics that facilitates the…

A methodology for comparative metatranscriptomics that facilitates the automated identification of metabolic hotspots that are significantly deregulated in disease, and recovered disease-associated…

Desktop app
G T A T C G C T A IDBA-MTP IDBA-MTP

IDBA-MTP

Adopts a novel approach to metatranscriptomic assembly that makes use of the…

Adopts a novel approach to metatranscriptomic assembly that makes use of the fact that there is a database of millions of known protein sequences associated with mRNAs. How to effectively use the…

Desktop app
G T A T C G C T A TAG TAG

TAG

A reads mapping algorithm for mapping of short reads onto a de Bruijn graph of…

A reads mapping algorithm for mapping of short reads onto a de Bruijn graph of assemblies. A hash table of junction k-mers (k-mers spanning branching structures in the de Bruijn graph) is used to…

Desktop app
G T A T C G C T A d2-tools d2-tools

d2-tools

Toolbox for counting the frequency of K-tuple from sequencing datasets and…

Toolbox for counting the frequency of K-tuple from sequencing datasets and calculate the dissimilarity.

Desktop app
G T A T C G C T A IDBA-MT IDBA-MT

IDBA-MT

An iterative De Bruijn Graph De Novo short read assembler for…

An iterative De Bruijn Graph De Novo short read assembler for meta-transcriptome.

Desktop app
G T A T C G C T A rRNASelector rRNASelector

rRNASelector

A computer program for selecting rRNA genes from metagenomic and…

A computer program for selecting rRNA genes from metagenomic and metatranscriptomic sequences.

Desktop app
Web app
G T A T C G C T A riboPicker riboPicker

riboPicker

Automatically identify and efficiently remove rRNA-like sequences from…

Automatically identify and efficiently remove rRNA-like sequences from metatranscriptomic and metagenomic datasets.

Desktop app
G T A T C G C T A SortMeRNA SortMeRNA

SortMeRNA

Software designed to rapidly filter ribosomal RNA fragments from…

Software designed to rapidly filter ribosomal RNA fragments from metatranscriptomic data produced by next-generation sequencers.

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