User: A

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A3.8k
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Comment: C: Getting total sequenced megabases for each sample
... Thank you I am not sure this is a target sequencing because they are saying whole genome sequencing and from previous paper on the same data they say ***A single library was created for each sample, and 100-bp paired-end sequencing was performed under contracts by Illumina and the Broad Institute ...
written 2 days ago by A3.8k
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Comment: C: Getting total sequenced megabases for each sample
... Sorry what is the size of genome here? Actually size is 2820 ? ...
written 2 days ago by A3.8k
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Comment: C: Getting total sequenced megabases for each sample
... I found this if “94% of the known genome being sequenced to at least 8× coverage”, I should 3000 MB * 0.94 = 2820. I should be dividing by 2820. For giga base does this differ? ...
written 2 days ago by A3.8k
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Comment: C: Getting total sequenced megabases for each sample
... I googled for giga base but I only found for mega base I googled, for example, some exome-seq kits capture 50 mb of the genome, so is it true about my data too? ...
written 2 days ago by A3.8k
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Getting total sequenced megabases for each sample
... Hello I have total number of mutation per sample (whole genome sequencing) I want to convert that to total number of mutations per giga base I googled for that People say I should divide the numbers of mutations by the total sequenced megabases for each sample But I am not sure what is the tota ...
genome vcf written 2 days ago by A3.8k
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Help with understanding this paragraph of this paper
... Hello In this paper https://www.biorxiv.org/content/10.1101/082552v1.full They are saying For any pair of pathways, we used the one-sided Fisher’s exact test to determine the significance of their co-mutation. If we have a matrix of pathways in rows and samples in columns and we have how ...
p-value fisher's exact test written 19 days ago by A3.8k
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Comment: A: Getting coding sequence length
... My genome is GRCH37, does this differ in CDS length? ...
written 21 days ago by A3.8k
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Comment: A: Getting coding sequence length
... This code suppose to get CDS length for human but I dob't know why I get error in second line ens<-read.table("Homo_sapiens.GRCh38.84.gtf/Homo_sapiens.GRCh38.84.gtf",sep="\t",skip=3) nn1<-which(ens[,3]=="CDS") genes<-paste0("ENSG",gsub(".*ENSG","",as.character.factor(ens[nn1,9] ...
written 21 days ago by A3.8k
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Comment: C: Getting coding sequence length
... No I don't You meant I must extract that from gif file? ...
written 21 days ago by A3.8k
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Getting coding sequence length
... Hi I have a list of genes Where I can get the `coding sequence length of each gene (in nucleotide)` ? I have a file having gene length but I guess that IS FOR whole gene length not coding sequence part of a gene Can you help please? ...
ncbi gene cds written 22 days ago by A3.8k

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