User: catherine

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catherine0
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Posts by catherine

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Can I use ANNOVAR to annotate the bacteria variants?
... Hi ,  I am currently working on Leptospira bacteria and would like to annotate the variants that I obtain using ANNOVAR. My main concern is would it be ok for me to use ANNOVAR to perform this task as most of the examples that I come across in forum and ANNOVAR documentation are on human using hg1 ...
next-gen sequencing written 5.3 years ago by catherine0 • updated 5.3 years ago by Istvan Albert ♦♦ 82k
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dbSNP download for bacteria Leptospira
... Good day. I am performing the variant annotation of the Leptospira. My question here is how can I get the dbSNP data for Leptospira that enable me to annotate the variant that I discover? The most common way to obtain this data is from UCSC. However, after browsing through USCS, I found that the in ...
snp written 5.3 years ago by catherine0
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Comment: C: Using while loop to go over all files in a folder
... Thank you very much!! By using ${i}, it's working!!! ...
written 5.6 years ago by catherine0
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Using while loop to go over all files in a folder
... Hi,  I am currently running fastx_trimmer tool in order to trim all my paired end RNAseq input files using while loop. The filenames are as follows: 1_1.fastq 1_2.fastq 2_1.fastq 2_2.fastq ................. 25_1.fastq 25_2.fastq Below is the code that I use to run the while loop in a bash sc ...
rna-seq written 5.6 years ago by catherine0 • updated 5.6 years ago by 5heikki8.6k

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