User: Bara'a

gravatar for Bara'a
Bara'a240
Reputation:
240
Status:
Trusted
Location:
Amman - Jordan
Last seen:
4 months, 2 weeks ago
Joined:
6 years, 5 months ago
Email:
b*************@yahoo.com

Researcher &

PhD Student in Computer Science

Posts by Bara'a

<prev • 104 results • page 1 of 11 • next >
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Comment: C: Converting runpsipred Script to Work on Windows OS
... I tried to provide the full path for my executables and database but still not working !! ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS
... Yes all my files are on the same directory !! ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS
... Thank you for the detailed explanation, that was really convincing ... I guess they succeeded in locking users -like me- in for nearly 10 years, but it's time to move to Linux and open source OS community as I LOVE Bioinformatics and pursuing my PhD in this interesting field. So, if I have to bite t ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS
... You are absolutely right regarding this ... I thought it would be an easy task to do so but apparently it seems impossible with the world heading towards open source OS. I guess I'm going to break the contract and surrender 👐 ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS
... That's a good solution though I must do a script to run psipred from a windows OS... why it's not supported, why ?!😭 ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS
... Yes, the file is there in the path specified by the error message but it is not seen by the command for some reason !! I've searched for the output that's supposed to be generated by the command but found nothing ... why on earth psipred is not for windows, that's really disappointing. ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS Via Python
... Yes you're right, it's not making use of any python facilities yet ... I'm working on obtaining psipred results in order to be further plotted for specific purposes using some python modules. Sorry if that causes any inconvenience. ...
written 2.0 years ago by Bara'a240
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Comment: C: Converting runpsipred Script to Work on Windows OS Via Python
... Ok... I've tried performing psiblast on a relatively small database just to check if it's working as expected: import os import sys os.system('blastdbcmd -db uniref90 -entry nm_000122 -outfmt "%f" -out test_query.txt') os.system('blastn -query test_query.txt -db uniref90 -out output ...
written 2.0 years ago by Bara'a240
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Converting runpsipred Script to Work on Windows OS
... Hi all... Following the [psipred][1] installation instruction I have installed blast+ executables on G:\ drive along with the impala utility from legacy blast (makemat and copymat binary files) in bin folder and configured the environment variable to the path they were installed on then I have ins ...
psipred windows written 2.0 years ago by Bara'a240
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Comment: C: Research Consultation for a phD Dissertation
... So you have easily figured things out !! indeed there is something going on between me and my former supervisor, we are at odds and have completely two different perspectives towards several points. He is still active in that area of research and I cant proceed with the old work due to the previous ...
written 2.5 years ago by Bara'a240

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Great Question 16 months ago, created a question with more than 5,000 views. For Problem with qcovs in blast outfmt 6
Popular Question 16 months ago, created a question with more than 1,000 views. For Genomes on chromosome level
Popular Question 16 months ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Popular Question 2.0 years ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
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Centurion 2.0 years ago, created 100 posts.
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Popular Question 2.5 years ago, created a question with more than 1,000 views. For Profile picture on Biostars
Popular Question 3.1 years ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Popular Question 3.9 years ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Popular Question 4.5 years ago, created a question with more than 1,000 views. For Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Teacher 5.0 years ago, created an answer with at least 3 up-votes. For A: what is your daily must see bioinformatics web site?
Scholar 5.5 years ago, created an answer that has been accepted. For A: Rename Duplicate ID's for Different Fasta Sequences on Windows 7
Popular Question 5.6 years ago, created a question with more than 1,000 views. For Can't access individual attributes of tabular outfmt 6 blast output while parsing
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