Moderator: Mo Heydarian

gravatar for Mo Heydarian
Mo Heydarian600
Reputation:
600
Status:
Trusted
Location:
United States
Last seen:
5 days, 20 hours ago
Joined:
4 years, 10 months ago
Email:
m*********@gmail.com

Posts by Mo Heydarian

<prev • 97 results • page 1 of 10 • next >
3
votes
2
answers
45
views
2
answers
Answer: A: Cut duplicates in Galaxy? as in Excel?
... Hello, The tool "Unique" (under the Text Manipulation category) will remove duplicate lines in Galaxy. Thanks for using Galaxy! Cheers, Mo Heydarian ...
written 20 days ago by Mo Heydarian600
1
vote
1
answer
78
views
1
answers
Answer: A: How to use and program Galaxy to download 300 SRA files at once form the NIH dat
... Hello, Great question. At the moment the best way to retrieve data from NCBI in Galaxy is by using the "NCBI SRA Tools" suite. These tools allow you to import individual data entries or import many data entries as a "collection" ready for batch analysis. I am putting a short guide below that will w ...
written 4 weeks ago by Mo Heydarian600
1
vote
2
answers
114
views
2
answers
Answer: A: rna seq read cleaning
... Hello, Can you provide some more information on what data you would like to remove bacterial reads from and what your desired outcome is? This will help in answering your question. Look forward to hearing from you again! Thanks for using Galaxy! Cheers, Mo Heydarian ...
written 6 weeks ago by Mo Heydarian600
0
votes
2
answers
132
views
2
answers
Answer: A: HiSAT2 Alignment Rate Dropping with Cufflinks export option enabled
... Hello, This is an interesting problem. The [HISAT2 manual][1] mentions a reduced mapping rate with the -dta option, but not how much to expect. I recommend reporting this issue to the HISAT2 github repository where the authors of the tool can comment or provide insight on the dramatic reduced mapp ...
written 6 weeks ago by Mo Heydarian600
1
vote
1
answer
122
views
1
answers
Answer: A: trimming my illumina sequences
... Hello, Have you checked your data with FASTQC before trimming to ensure that your library contains reads with sufficient quality to pass the quality filters you set for the trimming tools used? Also, please double check that your file format is "fastqsanger" and not one of the other "fastq*" forma ...
written 6 weeks ago by Mo Heydarian600
0
votes
2
answers
80
views
2
answers
Comment: C: How to Intersect Replicates in ChIPseq workflow
... Hi Dan, You are correct, you can't add multiple inputs to the input node of Multiple Intersect. Sorry for the confusion. In the workflow editor on the tool form of Multiple Intersect, try changing the first parameter (Sample name) from "Use input's tag" to "Enter custom name per file". This will e ...
written 6 weeks ago by Mo Heydarian600
0
votes
2
answers
80
views
2
answers
Answer: A: How to Intersect Replicates in ChIPseq workflow
... Hello, Have a look at this tutorial on chIP-seq analysis, it may help: https://galaxyproject.github.io/training-material//ChIP-Seq/tutorials/TAL1_binding_site_identification You will want to intersect your peaks after running the aligned data through MACS. In the workflow editor you can link mul ...
written 6 weeks ago by Mo Heydarian600
0
votes
1
answer
95
views
1
answers
Comment: C: Quota limit reached... but not really
... Hello, Please try logging out and logging back into your account. Let us know if this worked for you. Cheers, Mo Heydarian ...
written 6 weeks ago by Mo Heydarian600
1
vote
2
answers
100
views
2
answers
Answer: A: FTP upload low speed
... Thanks for sharing this! This is valuable information to have for our users that may encounter this issue in the future. Your contribution here will likely save others hours (or days) of headache. Thanks for your contribution! Thanks for using Galaxy! Cheers, Mo Heydarian ...
written 7 weeks ago by Mo Heydarian600
0
votes
2
answers
100
views
2
answers
Comment: C: FTP upload low speed
... Hello, That is a very valid answer :) . I asked because you mentioned your limit is 50 GB, users on useGalaxy.org all have a storage limit of 250 GB, and this confused me. One thing you could try is submitting files individually to your FTP transfer client, instead of one large submission. ...
written 7 weeks ago by Mo Heydarian600

Latest awards to Mo Heydarian

Teacher 19 days ago, created an answer with at least 3 up-votes. For A: Asking for R and XML code examples for creating Galaxy Interface.
Scholar 20 days ago, created an answer that has been accepted. For A: Asking for R and XML code examples for creating Galaxy Interface.
Popular Question 7 weeks ago, created a question with more than 1,000 views. For bedTools - Genome file
Scholar 5 months ago, created an answer that has been accepted. For A: cuffdiff conditions related question
Scholar 9 months ago, created an answer that has been accepted. For A: cuffdiff conditions related question
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: cuffdiff conditions related question
Supporter 9 months 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: 117 users visited in the last hour