Question: Need help with "Bowtie2" tool
1
gravatar for meltemelitas
4.2 years ago by
meltemelitas10
United States
meltemelitas10 wrote:

Although my fasq data is in loaded, why could I not see the fast file in the bowtie2 checkbox?

Thanks!


 

Tool name: Bowtie2
Tool version: 0.2
Tool ID: toolshed.g2.bx.psu.edu/repos/devteam/bowtie2/bowtie2/0.2
ToolShed URL: https://toolshed.g2.bx.psu.edu/view/devteam/bowtie2

 

ADD COMMENTlink modified 4.2 years ago by Jennifer Hillman Jackson25k • written 4.2 years ago by meltemelitas10
1

What is a fast file and to which checkbox do you refer?

 

ADD REPLYlink written 4.2 years ago by Bjoern Gruening5.1k

Thank you very much, it was a fastq RNA-sequencing data file. When i try to use Bowtie2, I supposed to see the fasq file that I uploaded and visible in the history section.

If It is not clear, I can send an image of the screen.

Thank you very much! I appreciated!

ADD REPLYlink written 4.2 years ago by meltemelitas10
0
gravatar for Jennifer Hillman Jackson
4.2 years ago by
United States
Jennifer Hillman Jackson25k wrote:

Hi,

Here is some help for permitting tools to recognize datasets:
http://wiki.galaxyproject.org/Support#Tool_doesn.27t_recognize_dataset

And be certain that the formatting is correct, especially for fastq datasets. Proper quality score scaling and datatype assignment is very important:
http://wiki.galaxyproject.org/Support#Dataset_special_cases -> see FASTQ in first section

Your question was a bit difficult to understand, so please let us know if this doesn't help, Jen, Galaxy team

ADD COMMENTlink written 4.2 years ago by Jennifer Hillman Jackson25k
Please log in to add an answer.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 123 users visited in the last hour