How to use GeneFuse to detect fusion for nanopore sequencing fastq?

OpenGene / GeneFuse

Gene fusion detection and visualization

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How to use GeneFuse to detect fusion for nanopore sequencing fastq? #18

Open pepenglp opened 5 years ago

pepenglp commented 5 years ago

Hi sfchen, I have installed genefuse and worked for the test data successfully. However, it did not work for nanopore fastq. Could you help me? Thank you! My command line as follow: genefuse -r ~/database/genome/GRCh38/Homo_sapiens.GRCh38.dna.primary_assembly.fa -f cosmic-fusion-list/cancer.GRCh38.csv -t 8 -1 .fastq -h .fusion.html > ***.log

sfchen commented 5 years ago

genefuse hasn't been tested for nanopore data yet, so it may not work