EvalRSeq is a pipeline for assessing the quality of an RNA-Seq experiment. For
a description of the first version see
The following new features are implemented with version 1.2:
1. More organisms/assembly versions available
- Human GRCh38 (GRCh37 still available)
- Fruitfly BDGP 6
- Cow UMD3.1
2. There is a parameter now how to deal with duplicates in the final BAM file.
Duplicates can be either marked, removed, or kept.
3. Gene coverage analysis
The "Coverage Information chart" lists the percentages of genes with coverage of
exactly (normal) and at least (cumulative) N, with N covering all integer values
of the coverage range (1 to 40 by default). At the end of the table, the percentage
of genes below and above the minimum and maximum values is shown.
4. Biotype distribution
There is a new chart showing the distribution of bioytpes for the genes the reads
were mapped to. Genes are only counted if the number of reads mapped to it is higher
than a certain threshold (default 1).
5. Biotype specific qc-metrics
For all biotypes with more than a specified number of genes (default 30), a QC-Metrics
analysis is performed. Number and percentage of Coding Bases, UTR bases, and intronic bases
Your HUSAR team 02/09/17