Question: STAR-Fusion: Problem in interpreting
1
gravatar for Ranan Jyoti Sarma
11 months ago by
Mizoram University, India
Ranan Jyoti Sarma60 wrote:

Hi RNA-seq community

Could anyone give me an idea about these two terms "JunctionReadCount" and "SpanningFragCount" of STAR-Fusion result?

For some fusion, these numbers are very high (More than 100) and for some fusion, the numbers are extremely low (Less than 20). In this case, is there any threshold for filtering out the fusions having lower JunctionReadCount and SpanningFragCount?

rna-seq • 537 views
ADD COMMENTlink modified 11 months ago by lakhujanivijay5.1k • written 11 months ago by Ranan Jyoti Sarma60
0
gravatar for lakhujanivijay
11 months ago by
lakhujanivijay5.1k
India
lakhujanivijay5.1k wrote:

HI Ranan Jyoti Sarma

The JunctionReads column indicates the number of RNA-Seq fragments containing a read that aligns as a split read at the site of the putative fusion junction.

The SpanningFrags column indicates the number of RNA-Seq fragments that encompass the fusion junction such that one read of the pair aligns to a different gene than the other paired-end read of that fragment.

Source: https://github.com/STAR-Fusion/STAR-Fusion/wiki

Please read throught this page in details for more information.

ADD COMMENTlink written 11 months ago by lakhujanivijay5.1k
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