I have RNA-Seq data from tumour samples and references, and I have had success calling gene fusion events. However, although I have tried a range …

<p>Hi,</p> <p>I performed an RNA-Seq experiment with a very heterogenous tumor sample. In this sample, I found a fusion gene transcript ( genes on different …

<p>Hi,</p> <p>I was thinking on how to check for fusion events with an known position using RNA-Seq data. I know that I have several fusion …

<p>Hi,</p> <p>To analyze newly discovered transcript (like lncRNAs), I want to check if the structure of interesting RNA candidates are similar to known RNAs, and …

<p>Hi,</p> <p>I tried trinity one my data to find fusion gene. After trinity, I've a transcriptiome for each of my samples. Is there a way …

<p>Hello,</p> <p>I'm currently using tophat 2.04 with --fusion-search to discover fusion transcripts in a non-well annotated genome. I created my own annotation with the gene …

<p>Hi,</p> <p>I'm wondering what is the best method to extract the number of reads for each feature in a gtf (or gff, bed,...) file. I …

<p>Hi,</p> <p>Does Anyone tried an analysis of tophat-fusion output ? I have a few samples (2 groups (A &amp; B) of ~10 samples) and I …

<p>Hi,</p> <p>After the execution of tophat-fusion. I want to visualize the alignment in IGV. So with the sam output file I execute samtools to convert …

<p>Hi,</p> <p>Anyone has an idea of memory and time requirement for tophat 1.4.1 for 76 paired-end reads (~60M reads) ?</p> <p>Thanks,</p> <p>N.</p>