User: kspata

gravatar for kspata
kspata10
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10
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New User
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Last seen:
4 months, 2 weeks ago
Joined:
9 months ago
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k*****@gmail.com

Posts by kspata

<prev • 8 results • page 1 of 1 • next >
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Comment: C: Convert blastn to gff3
... Hi I am open to use a parser as well.. the question is just how to write it? ...
written 7 months ago by kspata10
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Convert blastn to gff3
... Hi I have the output of blastn in a tabular format. I need to convert this into a gff3 format. How to write a parser for this or how can i do it without parser? ...
gff3 blastp blastn written 7 months ago by kspata10
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Comment: C: CRISPR repeat identification tool comparison
... I compared both tools on multiple reference samples and compared the output for exact matches with crispr database. I then discarded the tool which gave over-prediction of the putative crispr arrays. I found piler-CR to be better at crispr prediction than crt for my sample. ...
written 8 months ago by kspata10
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Comment: C: CRISPR repeat identification tool comparison
... the output of both tools is number of putative crispr arrays present in an organism. Pilercr output Array 1 >NODE_2_length_616862_cov_34.5047 Pos Repeat %id Spacer Left flank Repeat Spacer ========== ====== ====== ====== === ...
written 8 months ago by kspata10 • updated 8 months ago by WouterDeCoster23k
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Comment: A: No best K value found
... sorry for wrong response. well I did not install R which is a prerequisite for kmergenie. I installed it and ran the command make again. ...
written 8 months ago by kspata10
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CRISPR repeat identification tool comparison
... Hi I am using two bioinformatics tools for identifying CRISPR repeats. These tools are pilercr and CRT. How to compare the output of these two tools especially how to know which one is better? My thoughts on this is to run my sample reads and reference genomes on both tools with and then find the ma ...
crispr alignment blast written 8 months ago by kspata10 • updated 8 months ago by Alex Reynolds21k
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Comment: A: No best K value found
... Hi thanks for replying.. i did a minor mistake while installing the software.. now its working correctly ...
written 8 months ago by kspata10
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No best K value found
... I used command ./kmergenie running histogram estimation Setting maximum kmer length to: 251 bp computing histograms (from k=21 to k=121): ntCard wall-clock time over all k values: 0 seconds fitting model to histograms to estimate best k could not predict a best k value No best k found Do i need ...
assembly kmergenie written 9 months ago by kspata10

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