User: gtasource

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gtasource10
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Posts by gtasource

<prev • 6 results • page 1 of 1 • next >
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Expanding Genomic Coordinates Using Bedtools
... I have the following bed file chr1 18551 18579 chr1 18559 18583 chr1 18966 18991 chr1 18966 18991 chr1 18966 18993 I want to expand the coordinates to generate a new file that lists every single coordinate individually. For example: chr1 18551 18552 chr1 18552 18 ...
bedtools bed tools genomc bed file written 11 days ago by gtasource10 • updated 10 days ago by arup340
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Comment: C: edgeR RPKM Values
... After the RPKM step, I receive this errror: Warning message: In Ops.factor(left, right) : ‘/’ not meaningful for factors ...
written 11 weeks ago by gtasource10
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edgeR RPKM Values
... Hello, I am trying to use edgeR to calculate RPKM values. However, when I have searched for help on this topic. I've still not been able to make sense of the existing R codes to work for me. Here's my current code: data_raw <- read.table("counts.txt", header = TRUE) group <- c(rep( ...
R bioconductor edger written 11 weeks ago by gtasource10 • updated 16 days ago by Biostar ♦♦ 20
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Bedtools Coverage Read Counts
... Using Bedtools makewindows, I generated a file that split up the genome by 5000kilobase windows. Using Bedtools Coverage, I then found how many reads fell into these 5000kb windows from a specific BAM file. Now that I am looking at the Bedtools Coverage results, I see that the following pieces of ...
bedtools written 3 months ago by gtasource10 • updated 3 months ago by Kevin Blighe21k
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Finding difference in read depth between two BAM files
... Hello, I am looking to find the difference in read depth between two bam files (A, B.) My initial idea was to use Bedtools, find the total coverage of A and B, and then use Bedtools intersect to compare where they overlap and do not. However, I'm just curious if anybody has alternative suggestion ...
bedtools bam sequencing written 6 months ago by gtasource10 • updated 6 months ago by Pierre Lindenbaum108k
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Comment: C: DNA Sequencing of multiple tissues for one individual
... Removed this postRemoved this postRemoved this postRemoved this postRemoved this postRemoved this postRemoved this postRemoved this postRemoved this post ...
written 18 months ago by gtasource10

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