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Hi there,
I read over the last thread from 2016 that dealt with this issue already, but I am using Stringtie 1.3.3b (which has an updated GFF parser since the bug from back then), and get the follo…
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https://bioentity.link//#/publication/10.1093/g3journal/jkae219
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Example:
`MATCH (f:Feature) WHERE f.label="P{β1WHI}" return f`
Neither of these results has a 'deprecated' annotation in pdb, but FBtp0006497 is actually obsolete in FlyBase.
I am therefore getti…
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Followed on from #305
- spellchecking (e.g https://github.com/FlyBase/flybase-ontology-scripts/blob/master/misc/obo_spellchecker.py)
- punctuation
- correct casing (e.g. https://github.com/cmung…
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Dear all,
The proposal has been made to obsolete:
GO:0015680 protein maturation by copper ion transfer
GO:0097428 protein maturation by iron-sulfur cluster transfer
GO:0110147 protein maturatio…
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I managed to successfully build and index with ( ftp://ftp.flybase.net/genomes/Drosophila_melanogaster/dmel_r6.04_FB2015_01/fasta/dmel-all-chromosome-r6.04.fasta.gz ) and version 0.1.5-beta (the one f…
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This is for example the case for trip RNAi lines, see for example http://flybase.org/reports/FBst0026748.html.
Note that bdsc names do not help here.
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FlyBase lookup & check already working. Just need to extend to add new feature node.
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https://bioentity.link//#/publication/10.1093/g3journal/jkae188
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Dear all,
The proposal has been made to obsolete
GO:0044255 cellular lipid metabolic process
GO:0097384 cellular lipid biosynthetic process
GO:0044242 cellular lipid catabolic process
see …