Re: [galaxy-user] joining two FASTq files with overlap reads

Kanwar, It is true that the FASTQ joiner tool will not assemble reads that overlap. But, when using BWA you will not want to do that anyway. Perhaps the problem with the data itself (format or quality score scaling) or the BWA parameters set? There should not be a problem as far as I know

Re: [galaxy-user] Remove unpaired reads from quality-filtered pared-end fastq files.

Hi Hiroki, This question has come up before, and the best advice our team has to offer is that in most cases, filtering the data this way is unnecessary. Still - there are a few methods to do this, but they are tedious to do - one is to basically covert everything to tabular format, extract

Re: [galaxy-user] Download data using FTP-access?

Hi Karen, I don't run windows OS, but found this link that seems to describe the same situation with a solution. Maybe give it a try and see if it works? http://stackoverflow.com/questions/3562095/using-curl-to-get-a-https-webpage-in-windows-7 This link also looked helpful, just from a