User: Mensur Dlakic

gravatar for Mensur Dlakic
Mensur Dlakic210
Reputation:
210
Status:
Trusted
Location:
USA
Website:
http://www.montana.edu...
Scholar ID:
Google Scholar Page
Last seen:
53 minutes ago
Joined:
3 weeks, 5 days ago
Email:
m************@gmail.com

Posts by Mensur Dlakic

<prev • 29 results • page 1 of 3 • next >
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Comment: C: Best way to visualize large phylogenetic trees
... For an alternative way to visualize phylogenetic relationships as clusters, see [**here**][1] and [**here**][2]. [1]: https://www.biorxiv.org/content/10.1101/591388v1.full [2]: https://github.com/niemasd/TreeCluster ...
written 1 day ago by Mensur Dlakic210
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Answer: A: Best way to visualize large phylogenetic trees
... You may want to check out [**the interactive tree of life**][1]. It is meant for big trees and you can test different representations easily. It is very difficult to make a legible tree with 300 nodes, especially if you have long names on top of that. If you don't need all of them, or if some are n ...
written 1 day ago by Mensur Dlakic210
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Answer: A: how can i execute more than one fasta sequence at the same time in hhblits?
... It is not clear whether you want to submit your sequences to the online server or to run them locally. For online submissions, I think that you will need to submit them one at a time. The rest of this writing is about local submissions. There is a nice perl script called `multithread.pl` that comes ...
written 3 days ago by Mensur Dlakic210
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Answer: A: How to pairfit with a certain part of multiple structures in a pse file in pymol
... Everything is spelled out in the error message: `ExecutiveAlign: mobile selection must derive from one object only.` Are you trying to move only residues 40-50 and separately residues 100-125? How can one do that without moving residues in between (51-99)? I suggest you try `(resn 40-125)`. The er ...
written 6 days ago by Mensur Dlakic210
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Comment: C: How to import multiple pdb files in a file in local computer to pymol simultaneo
... I think it would be more useful if you provide a link to the script rather than trying to paste the contents. It may be a good idea to delete the second posting of the same message as it clutters this page. You are trying to mimic the formatting of the `def` line from that script, while the proper ...
written 7 days ago by Mensur Dlakic210
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Answer: A: How to import multiple pdb files in a file in local computer to pymol simultaneo
... You do not need to modify anything. Let's say that your script is saved in directory `/home/anddy` and your pdb files in `/home/anddy/PDB`. After opening Pymol GUI, click next to the `PyMOL>` where the blinking cursor is and you will enter command line. Type: `run /home/anddy/load_files.py` Thi ...
written 8 days ago by Mensur Dlakic210
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Comment: C: error while loading shared libraries: libboost_iostreams.so.1.60.0
... For Ubuntu 14.04 (aka Xenial), boost 1.54 seems to be the latest available version (see [**here**][1]). You could do Ubuntu distribution upgrade which will give you access to higher versions of boost, but that may be a bit too involved given the problem you are trying to solve. A faster option would ...
written 9 days ago by Mensur Dlakic210
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Answer: A: error while loading shared libraries: libboost_iostreams.so.1.60.0
... As the error says, the program is looking for `libboost_iostreams.so.1.60.0` because it has been compiled with that library. Either it can't find `libboost_iostreams` at all, or it can't find that particular version. A proper way to fix this is to compile from source as in that case your program wil ...
written 9 days ago by Mensur Dlakic210
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Comment: C: i can't find the SRR sample on NCBI FTP, such as SRR018260
... Lots of useful info about downloading SRA files can be found [**here**][1] and [**here**][2]. [1]: https://www.biostars.org/p/111040/ [2]: https://www.ncbi.nlm.nih.gov/sra/docs/sradownload/ ...
written 13 days ago by Mensur Dlakic210
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Answer: A: How to define blast online to filter out PREDICTED and hypothetical proteins
... There is no such option for NCBI's blast to filter out predicted proteins. You may have to download the NR database, remove the proteins you don't want, and perform local BLASTp searches. I hope you realize that many proteins have words `predicted` and `hypothetical` in their annotations without ac ...
written 14 days ago by Mensur Dlakic210

Latest awards to Mensur Dlakic

Scholar 7 days ago, created an answer that has been accepted. For A: Clustering method for p-value data
Teacher 7 days ago, created an answer with at least 3 up-votes. For A: Clustering method for p-value data
Scholar 17 days ago, created an answer that has been accepted. For A: Clustering method for p-value data
Scholar 25 days ago, created an answer that has been accepted. For A: Protein structure to classify domain sequences into full Vs. partial lengths and
Teacher 25 days ago, created an answer with at least 3 up-votes. For A: Protein structure to classify domain sequences into full Vs. partial lengths and

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