TPM calculator 0.0.3

TPMCalculator quantifies mRNA abundance directly from the alignments by parsing BAM files.

Quick Start

Test Data

Test data for this app appears directly in the Discovery Environment in the Data window under Community Data -> iplantcollaborative -> example_data -> TPMCalulator

Input Files


  • reference.gtf

  • bam_files (folder)


There are no required parameters.


Output Files

This analysis should generate three output files for each input:

  • sample1_genes.ent

  • sample1_genes.out

  • sample1_genes.uni

  • sample2_genes.ent

  • sample2_genes.out

  • sample2_genes.uni

Tool Source for App