Dario Beraldi's Projects
Fork for experimenting with github workflows
Text Only Genome Viewer!
Conda recipes for the bioconda channel.
Utilities for building and managing bioconda recipes
Unsorted scripts for bioinformatics
align BS-Seq reads and extract methylation without intermediate temp files
Pipeline for somatic variant detection from NGS data
Somatic copy variant caller (CNV) for next generation sequencing
List of 256 color codes for Xterm including an example of the color, Xterm Name, Xterm Number and HEX code.
A genome annotation tool for more than just protists
Tools to process and analyze deep sequencing data.
Software for detecting regions of BrdU and EdU incorporation in Oxford Nanopore reads.
Ultraperformant reimplementation of SICER
Command-line exporter of MS Excel files to CSV format
Fix OneDrive Zip files >4Gig
Fast and easy stats for FASTA and FASTQ files
Command line program to visualize genomic data
Easy TOC creation for GitHub README.md
A Java API for high-throughput sequencing data (HTS) formats.
Fork of htsjdk version 1.141. Mostly for the purpose of adapting it to other projects.
Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations
Code accompanying the manuscript "Accurate measurement of 5-methylcytosine and 5-hydroxymethylcytosine in human cerebellum DNA by oxidative bisulfite on an array (OxBS-array)"
A variety of bioinformatics programs written in Java
Java AWK interpreter/compiler
A tutorial on quadratic programming for deconvolution of mixed cell populations using R
Code supporting the article "Enhanced Methylation Analysis by Recovery of Unsequenceable Fragments", McInroy et al., 2016
Code used in published material like articles or theses.
Effect of downsampling the number of reads on differential gene expression from RNAseq experiments
Match query sequences against reference sequences