Thyago L Calvo's repositories
leprosy_reanalysis_paper
R code used to reanalyze/integrate/visualize a set of 9 leprosy public microarray datasets
mleprae-genomics_workflow
Snakemake workflow for processing Mycobacterium leprae whole genome sequencing data
thyagoleal.github.io
Landing page
ADMIXTURE-smartPCA-PLINK-and-EIGENSOFT
Scripts and notes on how to analyse processed NGS data
base-editor-design-tool
This tool designs guides for use with the base editor technology.
EditR
EditR: an algorithm for simple and cost effective measurement of base editing by quantifying Sanger trace fluorescence
enrichplot
Visualization of Functional Enrichment Result
getting-started-with-genomics-tools-and-resources
Unix, R and python tools for genomics and data science
immunedeconv
A unified interface to immune deconvolution methods (CIBERSORT, EPIC, quanTIseq, TIMER, xCell, MCPcounter)
indigo
Indigo: SNV and InDel Discovery in Chromatogram traces obtained from Sanger sequencing of PCR products
IntroductionToGenomics
Presentations from the "Introduction to Genomics" lecture series on the Genomics Boot Camp channel on YouTube.
knock-knock
toolkit for analyzing genome editing experiments
land_page
Landing page source files
pairwiseComparisons
Pairwise comparison tests for one-way designs 🔬📝
PrimeDesign
Software tool for the flexible design of pegRNAs and ngRNAs for prime editing!
RforMassSpectrometry.org
The R for Mass Spectrometry Initiative home page
rna-seq-star-deseq2
RNA-seq workflow using STAR and DESeq2
seq2science
Automated and customizable preprocessing of Next-Generation Sequencing data, including full (sc)ATAC-seq, ChIP-seq, and (sc)RNA-seq workflows. Works equally easy with public as local data.
snakemake-econ-r
reproducible research project template for R using Renv and snakemake with an econ application
snakemake-workflow-template
A template for standard compliant snakemake-workflows
statistical_inferences
Repository for the textbook 'Improving Your Statistical Inferences' by Daniel Lakens
styles
Official repository for Citation Style Language (CSL) citation styles.
variancePartition
Quantify and interpret divers of variation in multilevel gene expression experiments