Hi Dave:
Maybe some one knows a better way…
I would probably muck around in the database directly if there were a lot of
files.
One could probably move them all into a history, groom them, then pull the data
back into your libraries, deleting the old ones.
Brad
On Apr 25, 2013, at 4:58 AM, B
Hi Brad-
In the past, I had always been running the time-consuming fastqgroomer
step. However, based on this thread, I now realize this step is sometimes
unnecessary.
Here is my question. I have a large number of fastq data files that are
already in data libaries. They were imported in "fastq" fo
Hi dave:
The fastq groomer tool will convert your fastq files (of unknown base quality
scale) to fastqsanger. Are you sure these files are not already sanger scaled?
Modern illumina pipelines produce fastqsanger files.
If you do know the scale, just import the files explictly as fastqsanger (n
Hi Brad, Galaxy Support-
Besides changing them individually, is there a way to modify the settings
for a large number files from fastq to fastqsanger in batch? Either via the
bioblend or manually via the UI?
Thanks,
Dave
On Fri, Dec 7, 2012 at 3:53 AM, Langhorst, Brad wrote:
> You can just c
You can just change the format of the data from fastq to fastqsanger if you're
sure about the error format (use the pencil, then datatype tab) note:
fastqsanger !=fastqcsanger
Brad
On Dec 7, 2012, at 3:20 AM, 泽 蔡
mailto:caizexi...@yahoo.com.cn>> wrote:
Hi Alex
Now is an another problem. I now
Hi Alex
Now is an another problem. I now deal with two fastq files, there are Illumina
enconding 1.8 and pair-end, so I don't need to groom. But the fact is, I need
to use the "filter by quality" and "Fastq interlacer" and without groom thses
two tools can not regonize the files. Any idea to s
Hi,
Thanks a lot!
发件人： David Roquis
收件人： caizexi...@yahoo.com.cn; alex.boss...@wur.nl
抄送： galaxy-dev@lists.bx.psu.edu
发送日期： 2012年12月5日, 星期三, 上午 12:31
主题: RE: [galaxy-dev] 回复： 回复： Speed up the galaxy
Hi,
You can use fastQC to find out what is the qual
