Question: STAR-Fusion: Problem in interpreting
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gravatar for Ranan Jyoti Sarma
4 weeks ago by
Mizoram Univesity
Ranan Jyoti Sarma40 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 • 108 views
ADD COMMENTlink modified 4 weeks ago by lakhujanivijay4.4k • written 4 weeks ago by Ranan Jyoti Sarma40
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gravatar for lakhujanivijay
4 weeks ago by
lakhujanivijay4.4k
India
lakhujanivijay4.4k 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 4 weeks ago by lakhujanivijay4.4k
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