User: devarora

gravatar for devarora
devarora120
Reputation:
120
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Location:
SouthKorea
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a minute ago
Joined:
2 years, 1 month ago
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So many questions

In brief..looking for answers..!!

Posts by devarora

<prev • 67 results • page 1 of 7 • next >
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Comment: C: Combining VCF files using GATK
... I checked the log file and there was no such issue. I already gave one more shot to CombineGVCFs but more curious to check using GenomicsDBImport. Thanks ...
written 2 hours ago by devarora120
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Comment: C: Combining VCF files using GATK
... I am using gatk4.1.4.0 ...
written 2 hours ago by devarora120
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Combining VCF files using GATK
... I am trying to combine vcf file generated after haplotypecaller from different variety of breed. The total number of samples is ~100. I ran the command gatk CombineGVCFs -R genome.fna --variant 1.vcf.gz --variant 2.vcf.gz.....variant97.vcf.gz -O combine.g.vcf.gz but when I am trying to check t ...
vcf wgs gwas written 3 hours ago by devarora120
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Comment: C: Error in WGCNA packages installation in R?
... There is a trick that worked for me when I got such error. I installed all the packages manually which exit with non-zero exit status such: install.packages(c('libraries list ', 'with', 'non-zero', 'error')) enter all the packages name in it like **acepack**, **impute** etc and finally installe ...
written 2 days ago by devarora120
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Comment: C: Error in WGCNA packages installation in R?
... There was formatting issue. Try now ...
written 6 days ago by devarora120
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Comment: C: Error in WGCNA packages installation in R?
... Try this: install.packages("BiocManager") BiocManager::install("WGCNA") and what is the error? Is there any library missing or what you are getting there. ...
written 6 days ago by devarora120
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Answer: A: Error in WGCNA packages installation in R?
... Try this: install.packages(c("matrixStats", "Hmisc", "splines", "foreach", "doParallel", "fastcluster", "dynamicTreeCut", "survival")) source("http://bioconductor.org/biocLite.R") biocLite(c("GO.db", "preprocessCore", "impute")) or install locally : [For Linux][1] [For Windows][2] ...
written 6 days ago by devarora120
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Comment: C: RNASeq data analysis without control
... Thankyou for suggesting DGE tool. I will definetly opt for the same. As I mentioned earlier we have three groups (L1(1-5), L2(1-5), L3(1-5)) how can we perform pairwise analysis I am confused. Please elaborate for the same I will be grateful to you. ...
written 6 days ago by devarora120
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Comment: C: RNASeq data analysis without control
... I apologise for the same and will try not to do this. We have 15 samples 5 each tissue. I already gone through QC-Trimming-Indexing-Mapping- and now at cufflinks cuffmerge cuffdiff stages. I have seen one post suggesting treat one as control and other as experimental but that for treating time serie ...
written 6 days ago by devarora120
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RNASeq data analysis without control
... Dear All, I am facing an issue with data analysis. I have RNASeq sample from three different tissues and total 15 samples but with no control. I am trying finding a lead to get DEGs from them but no success yet. I would be grateful to you all if given any possible way to proceed. Thanks ...
rna-seq deg transcriptome written 6 days ago by devarora120

Latest awards to devarora

Supporter 4 weeks ago, voted at least 25 times.
Scholar 5 weeks ago, created an answer that has been accepted. For A: How to do chromosome painting?
Scholar 5 weeks ago, created an answer that has been accepted. For A: How to do chromosome painting?
Scholar 7 weeks ago, created an answer that has been accepted. For A: How to do chromosome painting?
Scholar 11 weeks ago, created an answer that has been accepted. For A: How to do chromosome painting?
Popular Question 12 weeks ago, created a question with more than 1,000 views. For WGCNA TOM calculation time

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