User: kabir.deb0353

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Posts by kabir.deb0353

<prev • 24 results • page 1 of 3 • next >
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Answer: A: How to analyse Eukaryotic genome by Comparative annotation toolkit (CAT) ?
... Hi thank you very much for your prompt reply, I already have BUSCO output which consists AUGUSTUS result as well as BUSCO Ortholog genes. Now I'm in mystery that how can I relate my BUSCO output (Ortholog genes, Augustus output etc.) with the Comparative annotation toolkit (CAT). ...
written 5 weeks ago by kabir.deb03530
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Answer: A: How Do I Translate Multiple (More Than 25000) Dna Sequences With Different Frame
... Hello apology for late reply, I often use [translatorX][1] for sequence alignment where you can get aligned protein sequence as well as DNA sequence alignment. Thanks. [1]: http://www.translatorx.co.uk/ ...
written 5 weeks ago by kabir.deb03530 • updated 5 weeks ago by ATpoint21k
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Answer: A: How to get aligned protein data from DNA sequences.
... Hello apology for late reply, I often use translatorX (http://www.translatorx.co.uk/) for sequence alignment where you can get aligned protein sequence as well as DNA sequence alignment. Thanks. ...
written 5 weeks ago by kabir.deb03530
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Comment: C: "OID not found" error with GI-list and preformatted nt BLAST database
... Have you solved your problem! If not please try to use `-parse_seqids` throughout the BLAST script, it makes tags for your ids in blast database which helps in parsing data using `blastdbcmd`. Thanks ...
written 5 weeks ago by kabir.deb03530
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Comment: A: How to Install Augustus properly ?
... Thanks everyone, Finally I've able to install BUSCO using ANACONDA, it's really cool. Now I'm trying to do comparative genome analysis using Comparative annotation toolkit (CAT). But somewhere having lost. It will be an immense help if someone familiar with this kind of tool can suggest any good tut ...
written 5 weeks ago by kabir.deb03530
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How to analyse Eukaryotic genome by Comparative annotation toolkit (CAT) with BUSCO output?
... Hello, I'm very new in **Eukaryotic genome annotation**; going through internet I found **Comparative annotation toolkit (CAT)** is very good tool for doing so....I have installed **Comparative annotation toolkit** (**CAT**) using Anaconda after creating a separate python=2.7 environment using foll ...
genome alignment sequence sequencing written 5 weeks ago by kabir.deb03530
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Answer: A: How To Retrieve Hmmsearch Output Sequences From Target Database..
... Hello chevivien, Have you solved the problem? I'm facing the same problem and couldn't find any way out. It will be an immense help for me if you please give me suggestions to overcome it. Thanks in advance ...
written 13 months ago by kabir.deb03530
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Masking and Parsing problem in Standalone BLAST 2.7.1?
... Dear Sir/Ma'am, I was performing tBLASTn, Query = protein fasta sequence (n=114 ), Subject= Whole genome sequence In order to do that, I began with the building of a blast database after masking of sequence data using `dustmasker` and `windowmasker` $dustmasker -in XYZ.fna -infmt fasta -parse ...
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Comment: C: run_BUSCO.py running problem in UBUNTU-16.04?
... Thank yo so much @genomax for your suggestion, but now I'm stuck in the new problem, I was running BUSCO Command Line: python3 run_BUSCO.py --in ../sample_data/target.fa --out TEST --lineage_path ../sample_data/example --mode genome Error Message: INFO ****************** Start a BUS ...
written 13 months ago by kabir.deb03530
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run_BUSCO.py running problem in UBUNTU-16.04?
... I have installed BUSCO in my Ubuntu 16.04, according to the manual but when I run `run_BUSCO.py` it was showing line 26, in from pipebricks.PipeLogger import PipeLogger ModuleNotFoundError: No module named 'pipebricks' What should I do for solving this problem? ...
pipebricks busco written 13 months ago by kabir.deb03530

Latest awards to kabir.deb0353

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