User: Jerryliu

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Jerryliu10
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Posts by Jerryliu

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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... Hey, sir, I have something to tell you. The program I started four days ago is still not finished, and the program looked like it got stuck in the outputting of the sequence, which is the step you mentioned before, like this, XX SQ Sequence 317941 BP; 94633 A; 70235 C; 57246 G; 95827 T; 0 oth ...
written 26 days ago by Jerryliu10
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... okay, I got it. I will be careful to make it right next time.!!! ...
written 29 days ago by Jerryliu10
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... THANK YOU!!! so I could just add "--expose_translations" before I am going to run, right? you mean editing the feature by user to fit into the EMBL feature list is doing the same thing as running the program using " --expose_translations" mode, so the output from these two ways is the same, excep ...
written 29 days ago by Jerryliu10
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... haha ..thanks for your answer. I just found something interesting, I edited the column in the gff file where should be transposon into one of the ENA features you mentioned(actually that are not), because I suspected that maybe it was the feature that the software could not recognize. afterward, I g ...
written 29 days ago by Jerryliu10
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... it is like this: EMBLmyGFF3 maker.gff3 maker.fa \ --topology linear \ --molecule_type 'genomic DNA' \ --transl_table 1 \ --species 'Drosophila melanogaster' \ --locus_tag LOCUSTAG \ --project_id PRJXXXXXXX \ -o result.embl I don't really know what these tag means, ...
written 29 days ago by Jerryliu10 • updated 29 days ago by genomax57k
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... I don't understand...what's the difference ???:)) ...
written 4 weeks ago by Jerryliu10
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... sure. ---------------------------------------------------------------------------------------------------------------------------------------------------------------- ##gff-version 3 chr1A RepeatMasker Transposon 280909615 280909852 1198 ID=Denovo_TE000001;Target=chr1A_523945824_545934324_1 ...
written 4 weeks ago by Jerryliu10 • updated 4 weeks ago by genomax57k
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Comment: C: Why the outcome of my EMBL conversion file is all 'gap'???
... Actually they. were all gaps. I wanted to transform my transposon element in GFF format to EMBL format, so the column which is displaying 'gap' now should be 'transposon', but I don't know why it failed. ...
written 4 weeks ago by Jerryliu10
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Why the outcome of my EMBL conversion file is all 'gap'?
... Thanks for the person telling me that there is a software called EMBLmyGFF3 that can convert gff3-like file into EMBL file. However, I applied the software to my fasta file and gff3 file, the result I got were all 'Gap's!!!? initially I thought it was because the source problem, which is stuff in ...
gene genome alignment written 4 weeks ago by Jerryliu10 • updated 22 days ago by WouterDeCoster32k
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When converting a GFF3 file into a EMBL file, what should be filled as locus_tag and ID?
... I am using the software EMBLmyGFF3 to convert a gff3 file into a emblem, but the locus_tug and ID were required , do any one knows where I should look for these information? and what do locus_tug and ID mean in an EMBL file? *************************************************************************** ...
gene genome sequence written 4 weeks ago by Jerryliu10

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