Example Analysis of Fusion Gene in the third Generation full-length Transcriptome of Pacbio

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The analysis of the fusion gene in the third generation of Pacbio full-length transcriptome (Iso-Seq 3) can be analyzed by the script "fusion_finder.py" in Cupcake.

Fusion_finder.py-input hq_isoforms.fastq-fq-s hq_isoforms.fastq.sorted.sam-o lq_isoforms.fasta.fusion-cluster_report_csv cluster_report.csv

Parameter description:

Hq_isoforms.fastq: this file is the hq fastq in the result of polish

Hq_isoforms.fastq.sorted.sam: this is the sam compared to the genome.

Lq_isoforms.fasta.fusion: this is the output

Cluster_report.csvZ: this is the result reported during the cluster process.

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