Alma Hernández de Rojas's repositories
ampvis2
Tools for visualising amplicon data
Art-culo-NGS-Malaga
Scripts for the manuscript Assessment of short-term spatio-temporal variability in mesozooplankton communities’ structure integrating microscopy and multigene high-throughput sequencing
CalfFecalMicrobiome
The study focused on a longitudinal study of the calf fecal microbiome from their arrival to the farm until 112 days. During this period, the 60 animals were treated divided in two treatment groups probiotic (SCFP) and control. Fecal samples were collected on the days 0, 28, 56, 84 and 112 for the microbiome analysis.
cutadapt
Cutadapt removes adapter sequences from sequencing reads
dorado
A LibTorch Basecaller for Oxford Nanopore Reads
dryad-app
Codebase for the collaboration of Dryad and Dash data publication and curation services.
emmeans
Estimated marginal means
ggpicrust2
Make Picrust2 Output Analysis and Visualization Easier
ggvegan
ggplot-based plots for vegan
Keemei
Validate tabular bioinformatics file formats in Google Sheets
LDM
Linear Decomposition Model
libro-sig
Libro libre sobre Sistemas de Información Geográfica
longitudinal_data_analysis
Scripts for the analysis of longitudinal data in R
LongRead_tutorials
Workflows and tutorials for LongRead analysis with specific focus on Oxford Nanopore data
metagenomics
Metagenomica
MitoFinder
MitoFinder: efficient automated large-scale extraction of mitogenomic data from high throughput sequencing data
MitoZ
MitoZ: A toolkit for assembly, annotation, and visualization of animal mitochondrial genomes
ph525x
ph525x. functions only, no data
poretools
a toolkit for working with Oxford nanopore data
qiime2
Official repository for the QIIME 2 framework.
qiime2R
Import qiime2 artifacts to R
quast
Genome assembly evaluation tool
readytowear
Ready-made Taxonomic Weights Repository
stamps2022
Materials for the STAMPS 2022 course at the MBL in Woods Hole, MA, USA
stats-in-r
Statistical Analysis of Biological Data
Tree-Root-Microbiome-Project
The scripts contained in this repository relate directly to the work conducted by the Tree Root Microbiome Project (TRMP) led by Dr Steve Wakelin.
WRS
Wilcox' Robust Statistics