I am trying to run BWA-MEM mapping in galaxy. I have uploaded FASTQ files using fastqcssanger and hg19 human genome. When I clicked on Map with BWA-MEM option, and tried to choose files from drop down menu, I couldn't find the files. It say "no fastqcssanger database available". But my history shows fastqcssanger files uploaded and in green. Could anyone help me to solve this problem. Thank you
This datatype is not supported by the tool at http://usegalaxy.org. The input must be fastqsanger.
Perhaps double check the type and correct if Illumina?
If really fastqcssanger, check the Tool Shed for other mapper options for use in a local or cloud Galaxy.
Thanks, Jen, Galaxy team