Interpreting makeSummary.sh Results

[Lolo Aboufoul]

Hi CLARK users, 

I successfully was able to run the makeSummary.sh script and generate the outputs of TableSummary_per_Report.csv and TableSummary_HitCount.csv. However, I'm struggling to interpret these csv files. Is there a way for the names of detected organisms along with the names of input samples to be displayed as an output? These are the current outputs for both files: 

TableSummary_per_Report.csv:

SampleName,#Reads,#ClassifiedReads,Alpha-Diversity(S-Index),MinAbundance(%),Proportion(%),Top1_Taxon_Name,Top1_Taxon_RelProp(%),Top2_Taxon_Name,Top2_Taxon_RelProp(%),Top3_Taxon_Name,Top3_Taxon_RelProp(%),Top4_Taxon_Name,Top4_Taxon_RelProp(%),Top5_Taxon_Name,Top5_Taxon_RelProp(%),Top6_Taxon_Name,Top6_Taxon_RelProp(%),Top7_Taxon_Name,Top7_Taxon_RelProp(%),Top8_Taxon_Name,Top8_Taxon_RelProp(%),Top9_Taxon_Name,Top9_Taxon_RelProp(%),Top10_Taxon_Name,Top10_Taxon_RelProp(%),

TestResults_Estimate_Abundance,26253056,13996327,1.89,5,53.31%,11320,57.41%,694009,13.09%,

TableSummary_HitCount.csv:

Filenames,TestResults_Estimate_Abundance,

#TotalReads,26253056,

#TotalReadsMapped,13996327,

AlphaDiversity,1.88977,

694009,1831977,

11320,8034767,

Thanks so much. 

[Rachid]

Hi Lolo,

Could you explain what you mean ? Could you show here how you'd like the output to be using an example?

Please note that these scripts are merely examples as how to process/analyze the results. 

If you implement another solution that fits your needs better then please let's know and share you solution here!

Thank you,

Best,

Rachid