Open RNAseqer opened 2 years ago
Hello,
I'm attempting take a look at differences in annotations within two mouse strains gtf. I did pull these directly from the Ensembl site.
Unfortunately the results look like the following:
Base level: 2.3 | 2.3 | Exon level: 0.0 | 0.0 | Intron level: 0.0 | 0.0 |
Intron chain level: 0.0 | 0.0 | Transcript level: 0.0 | 0.0 | Locus level: 0.0 | 0.0 |
Matching intron chains: 0 Matching transcripts: 6 Matching loci: 6 Missed exons: 346812/361584 ( 95.9%) Novel exons: 350935/365703 ( 96.0%) Missed introns: 209896/244471 ( 85.9%) Novel introns: 214789/248810 ( 86.3%) Missed loci: 32672/37945 ( 86.1%) Novel loci: 31683/36818 ( 86.1%)
Total union super-loci across all input datasets: 36115 102111 out of 102111 consensus transcripts written in cast_attempt.annotated.gtf (0 discarded as redundant)
Any suggestions would be much appreciated!
Hello,
I'm attempting take a look at differences in annotations within two mouse strains gtf. I did pull these directly from the Ensembl site.
Unfortunately the results look like the following:
= Summary for dataset: Mus_musculus_casteij.CAST_EiJ_v1.103.gff3
Query mRNAs : 102111 in 36818 loci (87154 multi-exon transcripts)
(14823 multi-transcript loci, ~2.8 transcripts per locus)
Reference mRNAs : 100958 in 37945 loci (85196 multi-exon)
Super-loci w/ reference transcripts: 4432
-----------------| Sensitivity | Precision |
Intron chain level: 0.0 | 0.0 | Transcript level: 0.0 | 0.0 | Locus level: 0.0 | 0.0 |
Total union super-loci across all input datasets: 36115 102111 out of 102111 consensus transcripts written in cast_attempt.annotated.gtf (0 discarded as redundant)
Any suggestions would be much appreciated!