rnaQUASTcompare - SimonHegele/SSfSBT GitHub Wiki

Small python command line tool that generates comparative plots for multiple rnaQUAST short reports.

rnaQUAST (https://github.com/ablab/rnaquast) is a great tool for the evaluation of transcriptome assemblies. It generates a multitude of metrics for the quality of transcriptome assemblies, many of them by mapping the transcripts to an annotated genome. rnaQUAST does a great job at rating individual assemblies, however, directly comparing different reports is not as easy.

This tool merges multiple rnaQUAST short reports into a single dataframe which is outputted in TSV, CSV and TEX and compiled into an easy to interpret plot.

usage: rnaQUASTcompare [-h] [-n  [...]] [-c  [...]] [-t] [-o] report_dirs [report_dirs ...]

Comparing rnaQUAST reports from multiple assemblies. Generates combined Dataframes (.csv, tsv and .tex) and plots.

positional arguments:
  report_dirs           paths to output directories from rnaQUAST

options:
  -h, --help            show this help message and exit
  -n  [ ...], --names  [ ...]
                        list of names for the assemblies (default=["auto"])
  -c  [ ...], --colors  [ ...]
                        list of colors in hexcode (default=["auto"])
  -t , --title          main title for plot

Exemplary output