Admin: Mo Heydarian

gravatar for Mo Heydarian
Mo Heydarian830
Reputation:
830
Status:
Trusted
Location:
United States
Last seen:
1 day, 15 hours ago
Joined:
6 years, 4 months ago
Email:
m*********@gmail.com

Posts by Mo Heydarian

<prev • 125 results • page 1 of 13 • next >
0
votes
0
answers
60
views
0
answers
News: The October 2018 Galactic News!
... Hello All, The [October 2018 Galactic News][1] highlights what’s going on in the Galaxy this month, including: - Galactic Events: - [2018 SACNAS Workshops][2],10 October, USA - [European Galaxy Days][3], 19 - 20 November, Germany - [2019 Galaxy Admin Training][4], 28 January - 1 Februa ...
events news jobs tools publications written 6 weeks ago by Mo Heydarian830
1
vote
1
answer
116
views
1
answers
Answer: A: Workflow inserting input name to output file
... Hi, Try using the 'Collection Column Join' tool. This tool will combine files based on a common identifier and include the file name in each column header. If your input data is: ID Col2 Col3 The output would look like: ID SRR123456_2 SRR123456_3 SRR654321_2 SRR654321_3 Also have a look at ...
written 7 weeks ago by Mo Heydarian830
2
votes
1
answer
311
views
1
answers
Answer: A: How to do differential peak analysis after scaling bam files?
... Hello, To compare your scaled bedgraph files, you could use multiGPS or SICER. Both of these tools are available on useGalaxy.org and accept bedgraph file as input to determine differential binding. You can subsequently filter out the differentially bound regions not corresponding to your peaks usi ...
written 12 weeks ago by Mo Heydarian830
0
votes
1
answer
502
views
1
answers
Answer: A: Increasing galaxy memory
... Hello, An increase in storage quota on useGalaxy.org can be requested by emailing galaxy-bugs@lists.galaxyproject.org with a short explanation of why you need increased storage and for how long you will need it. Thanks for using Galaxy! Cheers, Mo Heydarian ...
written 16 months ago by Mo Heydarian830
0
votes
2
answers
649
views
2
answers
Comment: C: mRNA expression Count
... Please follow the tutorial I provided. In the tutorial normalized counts of transcripts are generated by DESeq2. You will need to provide the reference transcriptome (GTF) corresponding to your the organism you are working with: https://genome.ucsc.edu/cgi-bin/hgTables Thanks for using Galaxy! ...
written 16 months ago by Mo Heydarian830
0
votes
1
answer
299
views
1
answers
Answer: A: Save my data
... Hello, If you are using Galaxy all of your input, intermediate, and output files and visualizations are saved in your history. If this is not what you are asking about, please be more specific about what your goal is. Thanks for using Galaxy! Cheers, Mo Heydarian ...
written 16 months ago by Mo Heydarian830
0
votes
1
answer
637
views
1
answers
Comment: C: "Fold" a column from a table?
... For the example data you posted, you could select lines matching (or not matching) "NP_" using the "Select" tool. This tool will search and select rows matching (or not) a string you provide. ...
written 16 months ago by Mo Heydarian830
1
vote
1
answer
637
views
1
answers
Comment: C: "Fold" a column from a table?
... Try splitting the data into two files, the first with correctly formatted data and the second with rows that have blank entries. For the second file, you can add a placeholder using "Add column" and then rearrange the columns with the "Cut" tool. Once the second file has the same format as the fir ...
written 16 months ago by Mo Heydarian830
0
votes
2
answers
649
views
2
answers
Answer: A: mRNA expression Count
... Hello, You can perform RNA-seq analysis in Galaxy. Most of the standard tools for RNA-seq analysis are available on useGalaxy.org Please have a look at the following tutorial that has step-by-step instructions for dealing with RNA-seq data, including sample data for trial and error: https://galaxyp ...
written 16 months ago by Mo Heydarian830
3
votes
1
answer
637
views
1
answers
Answer: A: "Fold" a column from a table?
... Hello, You could use the "Group" or "Datamash" tools. You would group by the first column and "concatenate distinct" on the 2nd, 3rd, and 4th columns. In the case of your example, I would clean it up to remove the 4th line, as it has a different number of columns the the first three. I'd suggest usi ...
written 16 months ago by Mo Heydarian830

Latest awards to Mo Heydarian

Popular Question 14 months ago, created a question with more than 1,000 views. For Installing HISAT2 on Cloudman
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: RNAseq analysis starter
Teacher 16 months ago, created an answer with at least 3 up-votes. For A: RNAseq analysis starter
Teacher 17 months ago, created an answer with at least 3 up-votes. For A: RNAseq analysis starter
Centurion 17 months ago, created 100 posts.
Popular Question 17 months ago, created a question with more than 1,000 views. For bedTools - Genome file
Teacher 18 months ago, created an answer with at least 3 up-votes. For A: Asking for R and XML code examples for creating Galaxy Interface.
Scholar 18 months ago, created an answer that has been accepted. For A: Asking for R and XML code examples for creating Galaxy Interface.
Popular Question 19 months ago, created a question with more than 1,000 views. For bedTools - Genome file
Scholar 23 months ago, created an answer that has been accepted. For A: cuffdiff conditions related question
Scholar 2.3 years ago, created an answer that has been accepted. For A: cuffdiff conditions related question
Teacher 2.3 years ago, created an answer with at least 3 up-votes. For A: cuffdiff conditions related question
Supporter 2.3 years ago, voted at least 25 times.

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 141 users visited in the last hour