anton wrote, On 04/01/2011 09:02 PM: > We are getting multiple requests for this but did not have the > bandwidth to do it. So if you are planning to implement - share > through the toolshed and we will roll it to main. >
To start, this patch adds "SRA" binary type with sniffing and upload support: http://cancan.cshl.edu/labmembers/gordon/files/sra_binary_data_type.patch It only adds the datatype to "datatypes_conf.xml.sample", so existing installations must manually add the following lines to their ""datatypes_conf.xml": <datatype extension="sra" type="galaxy.datatypes.binary:Sra" mimetype="application/octet-stream" display_in_upload="true"/> and <sniffer type="galaxy.datatypes.binary:Sra"/> A question to people who are using "fastq-dump" on the command line: What are the most common parameters you're using ? I've heard about using Illumina or Sanger quality scale (-Q 64 / -Q 33), Minimal read length (-M), Clipping (-W), quality filtering (-E). Suggestions are very welcomed. -gordon ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/
