Extracting exon and junction coordinates and read/junction count info

[gacatag]

Dear developers of QoRTs,
Hello.

After executing 'mergeAllCounts' I loaded exon and splice counts files such as QC.exonCounts.formatted.for.DEXSeq.txt , QC.spliceJunctionCounts.knownSplices.txt and QC.spliceJunctionCounts.novelSplices.txt into R. I cannot however find coordinates info of the exons for which the count info are in these files. How can I get exon coordinates together with the number of reads mapping to each exon and also separately in another column the number of reads spanning the introns flanking the exon.

The exon count files have information such as following:

                                       V1 V2
1                   ENSG00000278704.1:001 73
2 ENSG00000274847.1+ENSG00000277400.1:001  6
3 ENSG00000274847.1+ENSG00000277400.1:002 20
4 ENSG00000274847.1+ENSG00000277400.1:003 11
5 ENSG00000274847.1+ENSG00000277400.1:004  5

Does the read.qc.results.data() function provide me with such information ?

Cheers!