User: vinayjrao
vinayjrao • 170
- Reputation:
- 170
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- Location:
- JNCASR, India
- Last seen:
- 2 days, 21 hours ago
- Joined:
- 2 years, 8 months ago
- Email:
- v********@gmail.com
Posts by vinayjrao
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... Thank you both for the insight. Although, it is still not clear to me whether a decrease in fastq file size will linearly reduce the number of variants? ...
written 3 days ago by
vinayjrao • 170
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... Hi,
I analyzed a few human Exome-Seq data sets, and I noticed that their fastq files were around 2.5 Gb each. I am analyzing another set, where the fastq files are around 900 Mb. After aligning both with hg38, and following the same pipeline, I noticed upon variant calling (GATK HaplotypeCaller) th ...
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... Hi,
I am working with a microarray dataset, which is in the format -
> Control Control2 Treatment Treatment2
The dataset has been log transformed. I want to know if there a way to filter the data such that I get genes whose fold difference is greater than 2 fold in Treatment as ...
written 7 months ago by
vinayjrao • 170
• updated
7 months ago by
Nicolas Rosewick ♦ 8.6k
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Comment:
C: Averaging multiple columns
... Thank you for your help. It works perfectly. ...
written 8 months ago by
vinayjrao • 170
0
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255
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Comment:
C: Averaging multiple columns
... Thank you for your reply. I am still working on it.
Will update once done. ...
written 8 months ago by
vinayjrao • 170
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... Hi,
I have a file with five columns, from which I want the mean of the last four columns where the first rows of the first column are the same. For example, my file looks like this -
A 1 1 1 1
A 1 3 1 1
A 1 1 2 3
B 5 7 2 4
C 2 1 5 1
C 2 2 3 6
The desired output is -
A ...
1
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... Hi,
I have two data frames, both containing the columns `GeneName` and `logFC`.
Using `intersect()`, I have obtained the common genes between the two. I want to know how to merge my two dataframes based on the common dataframe.
Thank you. ...
written 8 months ago by
vinayjrao • 170
• updated
8 months ago by
lakhujanivijay ♦ 4.7k
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... Thanks Kevin, for the clarification. Although, I would like to know why I should remove these after normalization, and what is the significance of these positive control probes? ...
written 8 months ago by
vinayjrao • 170
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... Dear Kevin,
Thank you for your response. I am arranging some of the details below -
> ProbeUID ProbeName Sequence
> 51568 GT_Mm_44k_51_P314501 ACGTCGCTTTTTGATCCTTCGATGTCGGCTCTTCCTATCATTGTGAAGCAGAATTCACCA
> 1164 (+)E1A_r60_1 `Sequence Column is Empty`
And you sai ...
written 8 months ago by
vinayjrao • 170
0
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3.0k
views
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... I want to be able to see the contents of each file imported using `readTargets`. Is that possible? ...
written 8 months ago by
vinayjrao • 170
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