ViewVir - A pipeline for viral diversity analysis
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Updated
Sep 25, 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
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.
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.
Nextflow translation for SAMSA2 metatranscriptomics pipeline. Tailored for running on WEHI Milton.
Nextflow pipeline to detect and classify microbial reads in sequencing data from human samples.
🍰 Per sequence functional classification and taxonomic assignments
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.
Pipeline for metagenome and metatranscriptome joint assembly
A fast, efficient, and accurate functional and taxonomic meta-omic profiler built on Pufferfish and the ccdBG
gNOMO2 allows integrated multi-omics analyses of microbiomes
A pipeline for TotalRNA analysis
Nextflow (nf-core) workflow for mapping reads to large collections of genomes.
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.
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