Hi , have the Hapmap file `hapmap_file.hmp.txt` converted from `vcf`. I am trying to make a snp density plot like the given example. I want …

Hi, I am a wet-lab researcher and have zero experience in running bioinformatics software. Because I want to use ROSE to analyze super enhancers, I …

Hi, I am new to stacks for analyzing RAD-Seq data, I have run all the modules. I will like to know to get the total …

Hi all, I am still experimenting with the bioinformatics field. so I would really appreciate your help. I have a vcf file where I want …

Hi, I am analyzing a dataset that has paired tumor-normal data. I called variants using Varscan2 somatic, which provides really nice information on whether the …

1) Hi, Im using Mac OS and I'm having difficulty to run fastqc using terminal. It shows like this: This is the source distribution of …

Hi All, how can I retrieve data around a new and unknown SNP only having the nucleotide position re the RefGenome? I would like to …

Hi, I was wondering what all packages of R people have on their Rstudio. Specifically the people involved in NGS data analysis. I know, of …

I want to call snp/indel with low frequency, like `DP=100`, `ALT=10`. how to set HC/UG ? with UG, I run with: --min_indel_count_for_genotyping 2 --min_indel_fraction_per_sample 0.05 …

Hi, I wanted to know if using a different reference annotation file in cufflinks from that used in Tophat would impact the results? To explain …