Converting Eland Sorted.Export To Eland Results

Question

[Anna]

Hi, I am wondering that if anyons knows how to convert eland alignment files (s*sorted.txt/s*export.txt) to eland_extended.txt/eland.results.txt as these file are no longer available in GERALD folder(CASAVA 1.7). However some tools use these files as input data. Any help would be appreciated. Thanks Anna

Answer 1

[Istvan Albert]

If I recall correctly the eland extended format contains the reads before the quality filtering (Chastity) therefore may contain reads that are not useful. I also thought that the outputs were identical over all these files, no?

So just use the output that you get and forget about the extended file it has nothing useful in it (and that's why is not included anymore).