Hi
I use -G to supply a GTF file. But tophat show:
Warning: TopHat did not find any junctions in GTF file
I wonder what is wrong with my GTF file...
This is from my GTF file:
Chr1 SZ gene 1903 9817 . + . gene_id "Os01g01010";
Chr1 SZ transcript 1903 9817 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 1903 2268 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 2354 2448 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 2449 2616 . + 0 gene_id "Os01g01010"; transcript_id "Os01g01010.1";
I use -G to supply a GTF file. But tophat show:
Warning: TopHat did not find any junctions in GTF file
I wonder what is wrong with my GTF file...
This is from my GTF file:
Chr1 SZ gene 1903 9817 . + . gene_id "Os01g01010";
Chr1 SZ transcript 1903 9817 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 1903 2268 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 2354 2448 . + . gene_id "Os01g01010"; transcript_id "Os01g01010.1";
Chr1 SZ exon 2449 2616 . + 0 gene_id "Os01g01010"; transcript_id "Os01g01010.1";
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