Why do we required de novo sequencing if almost all the organisms are being sequenced? Why Don't we only focus on reference based sequencing?

Hi all, For doing an RNA-seq analysis, I used STAR for mapping reads to the genome followed by Stringtie for genome-guided assembly. I downloaded the …

Hi all, I'm trying to use cufflinks and related programs (cuffmerge and cuffdiff) to find differentially expressed genes and some splicing events between two conditions …

What is the difference between Genome fraction and Genome coverage while aligning contigs on reference genome in de novo genome assembly?

Why people continue using Tophat if Hisat is available or is Tophat more efficient? ( I read a recent paper using Tophat). And about cufflinks …

Is there any way to forbid transcript assembly and only use the annotation file in cuffdiff/cufflinks? It seems that the software automatically do the assembly …

Bowtie2 VS Tophat What's the difference between them? and why Tophat required Bowtie2 to be already installed in your system?

<p>What is N50 in de novo genome assembler &quot;Velvet&quot;? and why we calculate it?</p>

I am using Ion torrent for sequencing. In Torrent Browser Analysis Report read depth always shown as blank after complete sequencing. Why? What I am …

<p>Hi,</p> <p>I am working with cufflinks,cuffdiff for RNA-SEQ data. </p> <p>In cufflinks, If we are not looking for novel isoforms, we need to use GTF …