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written 2.8 years ago by
diltsjeri • 420
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2.8 years ago by
Devon Ryan ♦ 84k
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Recent Replies
-
A: How to fix .bam file that was diagnosed as "MISSING_READ_GROUP" by Picard Valida by
oriolebaltimore • 60
Hi Pierre and other experts, I used Picard ValidateSamFile and found the following errors. abo...
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C: Peak calling for microRNA by
JulianC • 0
In UCSC genome browser there's not the new assembly for my species, not yet. However from NCBI r...
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C: GATK 4 GenomeAnalysisTK still available? (Unable to access jarfile) by
ATpoint ♦ 7.5k
What is the output of `ls ~/src/gatk/` ?
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C: How to take input TCGA miRNA data in Limma R package for differential expression by
pradyumna Jayaram • 20
It seems like the data is for single sample. the same read count is available for multiple sample...
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C: Peak calling for microRNA by
Devon Ryan ♦ 84k
Have you looked at the repeatMasker track for that area on the UCSC genome browser? It's not unhe...
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C: Plot factors by specific column in ggplot by
cpad0112 • 9.0k
well, whatever you have mind, you can put it here. some one will understand it and provide a solu...
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C: GATK 4 GenomeAnalysisTK still available? (Unable to access jarfile) by
marongiu.luigi • 310
I have seen that post but I think it relates on how to launch GATK and see the available tools. I...
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C: GATK 4 GenomeAnalysisTK still available? (Unable to access jarfile) by
zx8754 ♦ 5.0k
Related / Possible duplicate post: https://www.biostars.org/p/304281/
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C: GATK 4 GenomeAnalysisTK still available? (Unable to access jarfile) by
marongiu.luigi • 310
I guess this [post][1] might shed light, is that so? GenomeAnalysisTK has been replaced by Realig...
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A: bwa mem low depth and fluctuating plot by
singh.vijender • 20
The plot looks fine to me. What read depth are you expecting? From the graph, it appears to have...
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A: hisat2 warning message dunring alignment of fasta file with reference genome by
singh.vijender • 20
The quickest test I would do is to check the insert size distribution of 1st million reads and if...
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C: Removal of repeat and blacklist regions from ChIP-seq data by
Devon Ryan ♦ 84k
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