When I run the command sambamba depth base -L genomicdataset001.bed $filename It gives the following error sambamba-depth: All files must be coordinate-sorted Why coordinate-sort is …

I am trying to use sambamba to an indexed whole genome dataset. basename_X $dataset f="$(basename_X -- $dataset)" sambamba depth base -L genomic.bed $dataset> ./reads/"$f.txt" However, …

I have the following script ``` samtools index dataset01.bam basename dataset01.bam f="$(basename -- dataset01.bam)" sambamba depth base -L genomic.bed dataset01.bam > ./read_depths/"$f.txt" ``` I run …

I have a whole genome dataset in a bam file and want to convert a whole exome dataset. Which steps I should take?

if genomic DNA is extracted from tissues, and the goal is to find variants such as SNP, indels, CNVs-which is the preferred method- whole exome …

Dear *, I currently try out DeepVariant, which was designed for Whole Exome Sequencing and Whole Genome Sequencing. Now I wonder if there is any …

Hi all, maybe it is a silly question but in my university script to annotate variants I have a couple of options relatives to gnomAD …

Hi, I want to calculate Copy number variations(CNV) from Whole exome seq data. What is the correct sequencing depth that can result in correct identification …

what are the advantages and disadvantages of whole exome sequencing? and What are the major limitations of exome sequencing?

I am trying to filter vcf files for Whole Exome Sequencing and I want to know what value is the minimum and maximum depth and …