Package: wnpp Severity: wishlist Subject: ITP: python-pauvre -- QC and genome browser plotting Oxford Nanopore and PacBio long reads Package: wnpp Owner: Andreas Tille <ti...@debian.org> Severity: wishlist
* Package name : python-pauvre Version : 0.1924 Upstream Author : Darrin T. Schultz * URL : https://github.com/conchoecia/pauvre * License : GPL-3+ Programming Lang: Python Description : QC and genome browser plotting Oxford Nanopore and PacBio long reads Pauvre is a plotting package designed for nanopore and PacBio long reads. . This package currently hosts four scripts for plotting and/or printing stats. . pauvre marginplot Takes a fastq file as input and outputs a marginal histogram with a heatmap. pauvre stats Takes a fastq file as input and prints out a table of stats, including how many basepairs/reads there are for a length/mean quality cutoff. This is also automagically called when using pauvre marginplot pauvre redwood Method of representing circular genomes. A redwood plot contains long reads as "rings" on the inside, a gene annotation "cambrium/phloem", and a RNAseq "bark". The input is .bam files for the long reads and RNAseq data, and a .gff file for the annotation. pauvre synteny Makes a synteny plot of circular genomes. Finds the most parsimonius rotation to display the synteny of all the input genomes with the fewest crossings-over. Input is one .gff file per circular genome and one directory of gene alignments. Remark: This package is maintained by Debian Med Packaging Team at https://salsa.debian.org/med-team/python-pauvre
