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Recent Votes
- A: Analyzing fold change when Cq value in treatment condition is 0 (not expressed)
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Recent Replies
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C: Is there a tool or efficient method of confirming that a FASTQ file and BAM file by
swbarnes2 ♦ 4.0k
If you have removed reads because they did not map, or because they were duplicates, you do not n...
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A: Comparing genome assemblies of the same animal by
a.rex • 150
I have two protein fasta files of the same animal. One is an assembly with a small N50; the other...
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A: Count 0, 5, 20 covered sites in bam by
Pierre Lindenbaum ♦ 112k
samtools depth -a in.bam | awk '{D=int($3);if(D<5) {D=0;} else if(D<20) {D=5;} else D=2...
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C: Control-FREEC breakPointThreshold value by
Kevin Blighe ♦ 28k
A late comment but I have been using Control FREEC recently and encountered the situation where m...
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A: Trimmomatic execution removes the data from my fastq sequence file. What am I do by
kristina.mahan • 0
Added output file for trimlog and put the 4 output files in correct order and it looks like it's ...
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A: Analyzing fold change when Cq value in treatment condition is 0 (not expressed) by
Devon Ryan ♦ 84k
The Cq for an unexpressed gene is the maximum number of cycles that the qPCR machine goes through...
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A: Count 0, 5, 20 covered sites in bam by
Devon Ryan ♦ 84k
You can get the relevant percentage of the genome with [plotCoverage](https://deeptools.readthedo...
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C: Is there a tool or efficient method of confirming that a FASTQ file and BAM file by
claudiadast • 0
By processed bams, I mean bams that have been sorted, deduped, and recalibrated. By unprocessed, ...
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A: Problem with RNA seq library preparation by
Devon Ryan ♦ 84k
> Is it necessary to extract RNA from all samples (replicates) on the same day? As much as po...
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C: Count 0, 5, 20 covered sites in bam by
DVA • 470
Thank you for the comment @genomax, I am looking at individual base level.
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C: Analyzing fold change when Cq value in treatment condition is 0 (not expressed) by
jared.andrews07 • 1.3k
Well, if it's zero, you can't show a fold change. Better off just showing the Cq values, gets the...
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C: Retrieve title name by accession R vs Python by
Pierre Lindenbaum ♦ 112k
$ wget -q -O - "https://eutils.ncbi.nlm.nih.gov/entrez/eutils/efetch.fcgi?db=nuccore&id=N...
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