Re: [galaxy-dev] Tophat problem

2013-05-20 Thread Jennifer Jackson
Hi Zain, On 5/19/13 1:35 PM, Zain A Alvi wrote: Hi Jen, Thank you for the information regarding the FastQ information. It was really helpful. Lately, I have been getting the following error: "Error getting history update from this server- Bad Gateway". This occurred after I tried to reuplo

Re: [galaxy-dev] Tophat problem

2013-05-20 Thread Zain A Alvi
ain A Alvi Cc: galaxy-...@bx.psu.edu Subject: Re: [galaxy-dev] Tophat problem Hi Zain, I believe we already worked out the .fastqsanger/grooming part of this question in another thread. But for others reading this post, this is a help link: See "FASTQ" http://wiki.galax

Re: [galaxy-dev] Tophat problem

2013-05-07 Thread Jennifer Jackson
Hi Zain, I believe we already worked out the .fastqsanger/grooming part of this question in another thread. But for others reading this post, this is a help link: See "FASTQ" http://wiki.galaxyproject.org/Support#Dataset_special_cases Our RNA-exercise covers and example workflow: https://main

[galaxy-dev] Tophat problem

2013-05-06 Thread Zain A Alvi
Dear Sir or Madam, I hope this reaches you well. Lately, I have been trying to use tophat and then use bowtie on Galaxy project to create an aligned BAM file. The original data came from a SRA file that I have acquired from the Japanese DNA Databank. This SRA was then converted to FASTQ using t