| QIIME2 |
It is a microbiome multi-omics bioinformatics and data science platform that is trusted, free, open source, extensible, standalone pipeline. |
34554657 |
| bioBakery |
It is a collection of workflows and tasks for executing common microbial community analyses using standardized, validated tools and parameters. |
33944776 |
| DADA2 |
This package infers exact amplicon sequence variants (ASVs) from high-throughput amplicon sequencing data, replacing the coarser and less accurate OTU clustering approach. |
27214047 |
| SAMSA2 |
It is a rapid and efficient metatranscriptome pipeline for analyzing large RNA-seq datasets in a supercomputing cluster environment. |
29783945 |
| MetaPro |
The MetaPro Meta Transcriptomics/Genomics Pipeline is a software tool that will perform Transcriptomics and Genomic analysis on Paired and Single Reads of FASTQ data. |
37370188 |
| MetaGT |
The pipeline involves the alignment of metatranscriprome assembly to the metagenome assembly with further extracting CDSs, which are covered by transcripts. |
36386613 |
| MOCAT2 |
It can generate taxonomic and functional profiles, as well as assemblereads and predict genes in assembled sequences. |
23082188 |
| metaExpertPro |
It is a computational software for the analysis of DDA-MS and DIA-MS hybrid-based metaproteomic data. |
39278598 |
| MetaX |
It is a novel tool for linking peptide sequences with taxonomic and functional information in Metaproteomics. |
NA |
| UniPept |
It is an open source web application designed for metaproteomics data analysis with a focus on interactive datavisualizations. |
38995542 |
| MetaNovo |
It uses open-source tools to match raw spectra to database entries in a parallalized and scalable pipeline that can be installed in a cluster or standalone on a linux machine |
37327214 |
| MetaWRAP |
It is a metagenomic wrapper suite that accomplishes the core tasks of metagenomic analysis from start to finish. |
30219103 |
| MetaTrans |
It is a deep learning, Transformer-based, architecture for predicting metabolites of small molecules in humans. |
34094473 |
| SnapATAC2 |
A fast, scalable and versatile tool for analysis of single-cell omics data. |
38191932 |
| Cellsnake |
A user-friendly tool for single-cell RNA sequencing analysis. |
37889009 |
| MetaBakery |
A Singularity implementation of bioBakery tools as a skeleton application for efficient HPC deconvolution of microbiome metagenomic sequencing data to machine learning ready information. |
39139377 |