Mercurial > repos > iuc > gffcompare
annotate test-data/gffcompare_out3.stats @ 4:0f710191a66d draft
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
author | iuc |
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date | Thu, 17 Oct 2019 03:01:26 -0400 |
parents | 2bb86e2c417f |
children | f99dd58de04f |
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4
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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1 # gffcompare v0.11.2 | Command line was: |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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2 #gffcompare -r ref_annotation -R -T -e 100 -d 100 -p TCONS gffcompare_in4_gtf |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
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3 # |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
|
4 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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5 #= Summary for dataset: gffcompare_in4_gtf |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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6 # Query mRNAs : 35 in 29 loci (15 multi-exon transcripts) |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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7 # (3 multi-transcript loci, ~1.2 transcripts per locus) |
4
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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8 # Reference mRNAs : 19 in 6 loci (19 multi-exon) |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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9 # Super-loci w/ reference transcripts: 6 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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10 #-----------------| Sensitivity | Precision | |
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0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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11 Base level: 72.7 | 60.7 | |
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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12 Exon level: 81.0 | 55.7 | |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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13 Intron level: 81.2 | 64.4 | |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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14 Intron chain level: 10.5 | 13.3 | |
4
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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15 Transcript level: 10.5 | 5.7 | |
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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16 Locus level: 33.3 | 6.9 | |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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17 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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18 Matching intron chains: 2 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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19 Matching transcripts: 2 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
|
20 Matching loci: 2 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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21 |
4
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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22 Missed exons: 2/84 ( 2.4%) |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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23 Novel exons: 46/122 ( 37.7%) |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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24 Missed introns: 11/69 ( 15.9%) |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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25 Novel introns: 28/87 ( 32.2%) |
4
0f710191a66d
"planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit 851f81495c875ac09d936537ffd2b32e6af2c8c5"
iuc
parents:
3
diff
changeset
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26 Missed loci: 0/6 ( 0.0%) |
3
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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27 Novel loci: 15/29 ( 51.7%) |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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28 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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29 Total union super-loci across all input datasets: 21 |
2bb86e2c417f
planemo upload for repository https://github.com/galaxyproject/tools-iuc/tree/master/tools/gffcompare commit c8a752199588db982182cbe7fffbcb8512313526
iuc
parents:
diff
changeset
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30 35 out of 35 consensus transcripts written in gffcmp.annotated.gtf (0 discarded as redundant) |