ViewVir - A pipeline for viral diversity analysis
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Updated
Jul 26, 2024 - Python
ViewVir - A pipeline for viral diversity analysis
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"
Code for systematically classify data in SRA according to all the taxa present in the reads (SRA-metagenome)
Probe capture enrichment sequencing of amoA genes
Study of farmed oysters and nitrogen cycling in Point Judith Pond, RI. Scripts for analysis of 16S rRNA amplicon and metatranscriptomic data.
Meta Transcriptomic study of Nicotiana benthamiana to look for high expressed locations in the genome.
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.
Nextflow translation for SAMSA2 metatranscriptomics pipeline. Tailored for running on WEHI Milton.
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
This workflow performs a metatranscriptomics and bulk RNAseq analysis from the sequencing output data to the differential expression analyses.
Repository for the presentation of work developed by the student Duarte Velho for the UC Project, of the Master in Bioinformatics of the University of Minho, academic year 23-24.
Nextflow (nf-core) workflow for mapping reads to large collections of genomes.
A pipeline for TotalRNA analysis
Statistical package for metaome denovo assembly results.
Nextflow pipeline to detect and classify microbial reads in sequencing data from human samples.
Metagenomics and Metatranscriptomics pipeline
gNOMO2 allows integrated multi-omics analyses of microbiomes
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