Package: wnpp Severity: wishlist Owner: Debian-med team <debian-...@lists.debian.org> X-Debbugs-Cc: debian-de...@lists.debian.org, debian-...@lists.debian.org
* Package name : rockhopper Version : 2.0.3 Upstream Author : Brian Tjaden * URL : https://cs.wellesley.edu/~btjaden/Rockhopper * License : GPL-3+ Programming Lang: Java Description : system for analyzing bacterial RNA-seq data Rockhopper is a comprehensive and user-friendly system for computational analysis of bacterial RNA-seq data. As input, Rockhopper takes RNA sequencing reads output by high-throughput sequencing technology (FASTQ, QSEQ, FASTA, SAM, or BAM files). Rockhopper supports the following tasks: * Reference based transcript assembly (when one or more reference genomes are available) - Aligning reads to genomes - Assembling transcripts - Identifying transcript boundaries and novel transcripts such as small RNAs * De novo transcript assembly (when reference genomes are unavailable) * Normalizing data from different experiments * Quantifying transcript abundance * Testing for differential gene expression * Characterizing operon structures * Visualizing results in a genome browser The package will be team-maintained by Debian-med team.
