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Dario Beraldi's Projects

bwa-meth icon bwa-meth

align BS-Seq reads and extract methylation without intermediate temp files

cnv_facets icon cnv_facets

Somatic copy variant caller (CNV) for next generation sequencing

colors icon colors

List of 256 color codes for Xterm including an example of the color, Xterm Name, Xterm Number and HEX code.

companion icon companion

A genome annotation tool for more than just protists

deeptools icon deeptools

Tools to process and analyze deep sequencing data.

dnascent icon dnascent

Software for detecting regions of BrdU and EdU incorporation in Oxford Nanopore reads.

epic2 icon epic2

Ultraperformant reimplementation of SICER

exceltocsv icon exceltocsv

Command-line exporter of MS Excel files to CSV format

fxstat icon fxstat

Fast and easy stats for FASTA and FASTQ files

htsjdk icon htsjdk

A Java API for high-throughput sequencing data (HTS) formats.

htsjdk-1.141 icon htsjdk-1.141

Fork of htsjdk version 1.141. Mostly for the purpose of adapting it to other projects.

igv icon igv

Integrative Genomics Viewer. Fast, efficient, scalable visualization tool for genomics data and annotations

illumina-450k-oxbs icon illumina-450k-oxbs

Code accompanying the manuscript "Accurate measurement of 5-methylcytosine and 5-hydroxymethylcytosine in human cerebellum DNA by oxidative bisulfite on an array (OxBS-array)"

java-cafe icon java-cafe

A variety of bioinformatics programs written in Java

jawk icon jawk

Java AWK interpreter/compiler

rebuilt-enhanced-methyl-seq icon rebuilt-enhanced-methyl-seq

Code supporting the article "Enhanced Methylation Analysis by Recovery of Unsequenceable Fragments", McInroy et al., 2016

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