User: eennadi

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eennadi0
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Posts by eennadi

<prev • 35 results • page 1 of 4 • next >
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Answer: A: How to make blastp show complete gene name?
... I added -show_gis to the blast commandline and it worked ...
written 1 day ago by eennadi0
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How can I solve BACTERIAL_JOINED_FEATURES_NO_EXCEPTION error with MAKER-P
... I am using MAKER-P to annotate my genome. On submission to NCBI it returned this error FATAL: BACTERIAL_JOINED_FEATURES_NO_EXCEPTION: 280 coding regions with joined locations have no exceptions Any idea on how to approach this error? Thanks ...
assembly sequence written 1 day ago by eennadi0
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Comment: C: How can you measure the completeness of an annotation process?
... I have 17973 with a BUSCO of C:68.4%[S:64.5%,D:3.9%],F:6.0%,M:25.6%,n:1440 The BUSCO score for the genome assembly is 93.7% ...
written 27 days ago by eennadi0
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Comment: C: How can you measure the completeness of an annotation process?
... Closely related species have gene counts of about 26,857, 23,197 , 22,427 but the paper that reported this had a Complete (%) to CEGs by CEGMA pipeline 86.29 ...
written 27 days ago by eennadi0
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Comment: C: How can you measure the completeness of an annotation process?
... Can one proceed with these unsupported predictions? ...
written 27 days ago by eennadi0
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Comment: C: How can you measure the completeness of an annotation process?
... No I did not activate the keep_pred. When I set keep_pred=1 it gives proteins with AED of 1 see example: mRNA-1 protein AED:1.00 eAED:1.00 QI:0|0|0|0|1|1|6|0|661 ...
written 27 days ago by eennadi0
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Comment: C: How can you measure the completeness of an annotation process?
... I am trying to use Braker for re-annotation and to evaluate. But BRAKER has been very difficult to use. It keeps dying without any error. Do you have any suggestion on how to recover the lost 25% BUSCO? ...
written 27 days ago by eennadi0
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Why does braker stop without any error output?
... Hello, I am running Braker on my genome but it keeps dying without any error output. Find part of the log file below Please how can I also make braker to resume from where it stopped? # Fri Oct 30 17:57:20 2020: training AUGUSTUS # Fri Oct 30 17:57:20 2020: Copying optimized parameters to working ...
software error written 27 days ago by eennadi0
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Comment: A: How can you measure the completeness of an annotation process?
... I ran BUSCO with this commanline python /mnt/bin/busco/scripts/run_BUSCO.py -i ~.maker.transcripts.fasta -o output -l ${LINEAGE} -m transcriptome -c 15 -sp my_species -z --augustus_parameters='--progress=true' C:68.4%[S:64.5%,D:3.9%],F:6.0%,M:25.6%,n:1440 The BUSCO score for the genome as ...
written 27 days ago by eennadi0 • updated 27 days ago by genomax92k
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How can you measure the completeness of an annotation process?
... I am annotating a plant genome using Maker-P. I used EST and transcriptome data. I reduced the redunancy in the EST using cdhit. After three rounds of Maker( EST2genome and protein2genome followed by training SNAP twice and training Augustus twice) I now have a total set of genes. I am expecting mor ...
assembly written 28 days ago by eennadi0

Latest awards to eennadi

Popular Question 10 weeks ago, created a question with more than 1,000 views. For How to produce a consensus genome
Popular Question 8 months ago, created a question with more than 1,000 views. For Merging GFF from two different MAKER runs

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