Dear all,
We developed an algorithm called "Arriba" to detect gene fusions from RNA-Seq data of tumor samples. It is based on...
22 results in 0.0031 seconds.
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Arriba: Fast and accurate gene fusion detection from RNA-Seq data
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RNASeq fusion.out to SAM/BAM
I have used tophat2 to create a fusions.out file which I am happy with. I want to generate a BAM or SAM file so I can view it in FusioAnalyzer. Is this... -
Q about subjunc and fusions
Hello,
I am quite new to RNAseq and I am analyzing a viral dataset (150 bp paired end sequencing on the NextSeq) where I am specifically... -
Chimera fusion tool problem regarding gene annotation
Hi
I have used STAR aligner followed by Chimera package for further filtering with the aim to detect fusion genes. I have used hg19 genome reference... -
Count reads around breakpoint (rna-seq)
Hej there,
I'm trying to detect gene fusion with rna-seq. The draft below is showing
an example of how reads spanning read and split...Last edited by spoonman; 07-29-2014, 08:49 AM. -
program to automatically annotate a DNA sequence
Is there some good software to automatically annotate a DNA sequence? I'm dealing with a specific situation right now, but it would be nice to have a... -
Fusion-gene finding (in search for THE read-length)
Hi all,
I am very new to fusion-gene discovery and I am tasked along with some fellow colleagues to apply bioinformatic methods on clinical... -
tophat: definition of spanning mate pair
I have found a reference where the "encompassing" read and "spanning" reads are being clearly distinguished and well defined.
... -
Wrong exon number information from tophat-fusion
I posted this question in "BioInformatics" as well to someone who experienced similar problem with no answers. Any solutions from the RNASequencing... -
difference between rr ff and rf reads
Hi:
I am wondering which fusion should I prioritize from a couple of candidates.
As you know tophat fusion generates a list... -
Extracting Tophat Fusion Reads and converting to FASTQ
Hello,
I have been trying convert extracted fusion evidence reads from a Tophat-aligned RNA-Seq BAM file (with "XF" tag) back to...Last edited by medalofhonour; 09-17-2013, 04:41 AM. -
[Tool] Oncofuse: prediction of driver gene fusions from NGS data
Dear fellow bioinformaticians,
I would like to announce a new tool dedicated to post-processing of NGS-based fusion prediction data. The... -
gene fusion question
Dear all,
I am new to the gene fusion field and I would like to ask a basic question.
What is a good and easy program to... -
tophat2 fail while running long_spanning_reads with out_of_range error.
Hi all,
I am running tophat v2.0.9 on a set of samples using the --fusion-search option.
While I managed to successfully run tophat... -
Prediction model, that can fuse various types of data
I have developed a prediction algorithm, that can fuse various types of data (ontology, distance, network, sequence, and table data) into a single prediction...
