GeneFuse
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OpenGene
Gene fusion detection and visualization
Would param --unique=2 cause false postive if depth was high(eg:2000x)?
hi，I recently find GOPC location is not consist with its location in UCSU.  
https://github.com/OpenGene/GeneFuse/blob/aa281c03a04a9eb199bb80f219a6ca69a9963d71/genes/cancer.hg38.csv#L128-L154
hi, Sometimes it gets stuck and does not run. The final state is as follows. and the task is suspended. Why is it? Please help me, thanks! 23:11:23 start with...
Hi Shifu, no fusion found using tests data ./genefuse -r Homo_sapiens_assembly19.fasta -f druggable.hg19.csv -1 R1.fq.gz -2 R2.fq.gz -h r1r2n.html 15:51:11 start with 4 threads 15:51:50 mapper indexing done 15:52:20 sequence...
Dear sir, I tried to apply genefuse to our RNA-seq with known fusion gene. Somehow we couldn't find any fusion gene. command I used: genefuse -r hg19.fa -f druggable.hg19.csv -1...
Hi there: #Fusion: EML4_ENST00000318522.5:intron:18|-2:42544153___ALK_ENST00000389048.3:intron:19|+2:29446769 (total: 155, unique:13) 155 refers to the number of supporting reads and 13 is the unique reads. Can we calculate VAF by 13/155*100 = 8.4% ?...
Can not detect the fusions with the test data,is anyone can help me? all the testdata is from the git and http://opengene.org/dataset.html Here is my shell command: ./genefuse -r Homo_sapiens_assembly19.fasta...
Hello, Thanks for developing this tool! I was testing it on some hematological samples with TCF3 gene fusions (confirmed by FISH), and it seems like GeneFuse is not picking them...
Hi: I got a problem: `19:31:16 start with 12 threads` `19:34:24 mapper indexing done` `terminate called after throwing an instance of 'std::bad_alloc'` `what(): std::bad_alloc` I am wondering what caused this...
