User: rizoic

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rizoic90
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Posts by rizoic

<prev • 7 results • page 1 of 1 • next >
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Comment: C: How to separate a strain of MTB drug wise?
... A simplistic tweak would be to change the condition on these lines tail -n +2 data.txt |\ awk '{a[$1] = a[$1]","$2};END{for(i in a)print i"\t"a[i]}'|\ grep -P "\t,ISONIAZID,RIFAMPICIN$" Here the -P makes grep evaluate the expression as a perl compatible regex.The `\t and $`(indicating ...
written 21 days ago by rizoic90
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Comment: C: Error: Snakemake skiped a rule
... Changing rule bowtie2Aln: input: rules.trimmen.output To rule bowtie2Aln: input: rules.trimmen.output, rules.bowtie2Build.output Should solve this error for you. It would be better to state an explicit dependency than specifying a priority in this case. You can use the `--dry ...
written 24 days ago by rizoic90
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Answer: A: Error: Snakemake skiped a rule
... One of the problems I can see is that you have to add the output of rule `bowtie2Build` as input for rule `bowtie2Aln`. This way snakemake understands that it should perform the alignment only after the generation of the bowtie index. What it might do right now is execute the alignment step even b ...
written 24 days ago by rizoic90
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Answer: A: How to separate a strain of MTB drug wise?
... Incase you need a grep/awk based solution based on your tags. You can run something on these lines. If you paste the data into a file lets say `data.txt`. Example command for ` Pre-XDR` tail -n +2 data.txt |\ awk '{a[$1] = a[$1]","$2};END{for(i in a)print i"\t"a[i]}'|\ grep ISONIAZID| ...
written 25 days ago by rizoic90
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Answer: C: unable to load quant.sf files
... Can you add the output when you enter `files` on the terminal. You should not have both double/single quotes when you initialize files. Try removing the single quotes and changing the statement where you initialize files to `files <- c("/home/dell/Desktop/quant/quant3.sf", {same for other files}) ...
written 26 days ago by rizoic90
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Comment: C: R unused arguments, Biostrings
... You can use the code option in the formatting box to format your code for easier readability. One of the possibilities is that you have loaded another library which also has a translate function and that is the function being called. You can try being explicit with `Biostrings::translate()` and chec ...
written 28 days ago by rizoic90
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Comment: C: How to use genewise using pubmed.mineR ?
... Have you created an object of Abstracts class using the `readabs` function. Incase not you will need to create one with the following steps 1. Go to pubmed, search for your term of interest and then export the abstracts into a text file using the **Send To** functionality. 2. Now read in the abstrac ...
written 9 weeks ago by rizoic90

Latest awards to rizoic

Supporter 19 days ago, voted at least 25 times.
Scholar 21 days ago, created an answer that has been accepted. For C: unable to load quant.sf files
Teacher 21 days ago, created an answer with at least 3 up-votes. For C: unable to load quant.sf files
Scholar 26 days ago, created an answer that has been accepted. For C: unable to load quant.sf files
Teacher 26 days ago, created an answer with at least 3 up-votes. For C: unable to load quant.sf files

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