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comparison test-data/gffcompare_out2.stats @ 5:f99dd58de04f draft

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planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8028c2640d2d213da5097df2341a8281fe0b7c8
author iuc
date Fri, 03 Feb 2023 10:57:30 +0000
parents 2bb86e2c417f
children
comparison
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4:0f710191a66d 5:f99dd58de04f
1 # gffcompare v0.11.2 | Command line was: 1 # gffcompare v0.12.6 | Command line was:
2 #gffcompare -r ref_annotation -e 100 -d 100 -p TCONS gffcompare_in1_gtf gffcompare_in2_gtf 2 #gffcompare -V -r reference_annotation -T -d 100 -p TCONS gffcompare_in1_gtf gffcompare_in2_gtf
3 # 3 #
4 4
5 #= Summary for dataset: gffcompare_in1_gtf 5 #= Summary for dataset: gffcompare_in1_gtf
6 # Query mRNAs : 5 in 5 loci (0 multi-exon transcripts) 6 # Query mRNAs : 5 in 5 loci (0 multi-exon transcripts)
7 # (0 multi-transcript loci, ~1.0 transcripts per locus) 7 # (0 multi-transcript loci, ~1.0 transcripts per locus)
8 # Reference mRNAs : 1 in 1 loci (0 multi-exon) 8 # Reference mRNAs : 4 in 4 loci (0 multi-exon)
9 # Super-loci w/ reference transcripts: 1 9 # Super-loci w/ reference transcripts: 2
10 #-----------------| Sensitivity | Precision | 10 #-----------------| Sensitivity | Precision |
11 Base level: 94.7 | 42.9 | 11 Base level: 45.5 | 35.7 |
12 Exon level: 100.0 | 40.0 | 12 Exon level: 50.0 | 40.0 |
13 Transcript level: 0.0 | 0.0 | 13 Transcript level: 25.0 | 20.0 |
14 Locus level: 0.0 | 0.0 | 14 Locus level: 25.0 | 20.0 |
15 15
16 Matching intron chains: 0 16 Matching intron chains: 0
17 Matching transcripts: 0 17 Matching transcripts: 1
18 Matching loci: 0 18 Matching loci: 1
19 19
20 Missed exons: 0/1 ( 0.0%) 20 Missed exons: 2/4 ( 50.0%)
21 Novel exons: 3/5 ( 60.0%) 21 Novel exons: 3/5 ( 60.0%)
22 Missed loci: 0/1 ( 0.0%) 22 Missed loci: 2/4 ( 50.0%)
23 Novel loci: 3/5 ( 60.0%) 23 Novel loci: 3/5 ( 60.0%)
24 24
25 #= Summary for dataset: gffcompare_in2_gtf 25 #= Summary for dataset: gffcompare_in2_gtf
26 # Query mRNAs : 4 in 4 loci (0 multi-exon transcripts) 26 # Query mRNAs : 4 in 4 loci (0 multi-exon transcripts)
27 # (0 multi-transcript loci, ~1.0 transcripts per locus) 27 # (0 multi-transcript loci, ~1.0 transcripts per locus)
28 # Reference mRNAs : 1 in 1 loci (0 multi-exon) 28 # Reference mRNAs : 4 in 4 loci (0 multi-exon)
29 # Super-loci w/ reference transcripts: 1 29 # Super-loci w/ reference transcripts: 4
30 #-----------------| Sensitivity | Precision | 30 #-----------------| Sensitivity | Precision |
31 Base level: 31.6 | 18.2 | 31 Base level: 100.0 | 100.0 |
32 Exon level: 100.0 | 25.0 | 32 Exon level: 100.0 | 100.0 |
33 Transcript level: 0.0 | 0.0 | 33 Transcript level: 100.0 | 100.0 |
34 Locus level: 0.0 | 0.0 | 34 Locus level: 100.0 | 100.0 |
35 35
36 Matching intron chains: 0 36 Matching intron chains: 0
37 Matching transcripts: 0 37 Matching transcripts: 4
38 Matching loci: 0 38 Matching loci: 4
39 39
40 Missed exons: 0/1 ( 0.0%) 40 Missed exons: 0/4 ( 0.0%)
41 Novel exons: 3/4 ( 75.0%) 41 Novel exons: 0/4 ( 0.0%)
42 Missed loci: 0/1 ( 0.0%) 42 Missed loci: 0/4 ( 0.0%)
43 Novel loci: 3/4 ( 75.0%) 43 Novel loci: 0/4 ( 0.0%)
44 44
45 Total union super-loci across all input datasets: 6 45 Total union super-loci across all input datasets: 7
46 (0 multi-transcript, ~1.3 transcripts per locus) 46 (0 multi-transcript, ~1.1 transcripts per locus)
47 8 out of 8 consensus transcripts written in gffcmp.combined.gtf (0 discarded as redundant) 47 8 out of 8 consensus transcripts written in gffcmp.combined.gtf (0 discarded as redundant)