使用 stringtie --merge ： StringTie will assemble transcripts from multiple input files generating a unified non-redundant set of isoforms

gtf列表文件： 一行是一个gtf文件的路径。如果是相对路径则相对的是列表文件所在的文件夹 文件格式，例如 name1.gtf name2.gtf name3.gtf 参考gtf文件： reference annotation to include in the merging (GTF/GFF3) -T <span><</span>min_tpm> minimum input transcript TPM to include in the merge (default: 1.0) -c <span><</span>min_cov> minimum input transcript coverage to include in the merge (default: 0) -f <span><</span>min_iso> minimum isoform fraction (default: 0.01) -g <span><</span>gap_len> gap between transcripts to merge together (default: 250) -m <span><</span>min_len> minimum input transcript length to include in the merge (default: 50)

merge后的gtf文件