User: Dineshkumar K
Dineshkumar K • 10
- Reputation:
- 10
- Status:
- New User
- Location:
- Kasaragod, Kerala, India
- Last seen:
- 2 days, 23 hours ago
- Joined:
- 3 months ago
- Email:
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Posts by Dineshkumar K
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... I mean to say that, 66 amino acid sequences has been matched with 198 nucleotide sequence including gaps. In this case how could I calculate my query percentage?
I have another doubt, what is the meaning reference to the query (As you mentioned in your earlier reply).
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written 8 days ago by
Dineshkumar K • 10
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... Thank you healey for your clarification. However, I do not know how to move further in this cause. ...
written 8 days ago by
Dineshkumar K • 10
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... Dear sterck,
I feel qcovs is not useful in this regard. Suppose I have a query (Protein sequence) length 66 (total query sequence length is 300) and my subject hit (includes gaps) length is 198 (total subject length is 1200), like this if i calculate it takes much time to finish and also its error p ...
written 8 days ago by
Dineshkumar K • 10
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... Dear healey,
As you said I can do it. But I have plenty of out put to be calculated. Please suggest me any easy way to do the same. ...
written 8 days ago by
Dineshkumar K • 10
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... I have been extracting the homologous virulence gene sequences from my genome of interest by doing tBLASTn, wherein I have to specify two mandatory parameters,
Coverage = 40% and Percentage of identity = 70%
Percentage of identity can be specified/derived from the tabular out put format (-out ...
written 9 days ago by
Dineshkumar K • 10
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... Thank you Jflopezfernandez for your detailed answer. However, it prints all the occurrence of the key word. I need to extract only first occurrence of the key word from the excel file. If I pipe "head -1 command" which prints the first occurrence of the first keyword only.
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written 10 days ago by
Dineshkumar K • 10
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... Dear jflopezfernandez,
I have three key words and tried the command line as given below
grep -e 'avrbs3/avrbs2/xop' ./119.csv | head -1 > 119single.csv
But, I could not get the result. Since it works for single string very well.
Please help me to do the same for multiple strings
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written 11 days ago by
Dineshkumar K • 10
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... Dear healey,
Its not a bioinformatic analysis, however this kind of data mining has the important role in bioinformatics analysis. I am new to this community and this field as well, that is why I was not aware of this community main focus topics. If you feel that, my question distracting the focus o ...
written 11 days ago by
Dineshkumar K • 10
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... Dear Jflopezfernandez,
Thank you for your help, It works for single string, but how to to do the same for multiple strings. ...
written 11 days ago by
Dineshkumar K • 10
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