Moderator: Asaf

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Asaf4.8k
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Israel
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Posts by Asaf

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Comment: C: Suggestion on Improving mRNA and sRNA mapping
... I don't think you need to select at all. Are your sRNAs from human or bacteria? If from bacteria then they should be long (up to ~150 nt) ...
written 9 weeks ago by Asaf4.8k
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Answer: A: Assign taxonomy to protein fasta file
... I think you can BLAST them against nr and see where they came from, you should get 100% identity ...
written 11 weeks ago by Asaf4.8k
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Answer: C: Download link for plasmidSPAdes
... I think it's now integrated into spades, use -plasmid flag ...
written 12 weeks ago by Asaf4.8k
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Comment: C: Mothur alignment issues
... OK, you have 213k sequences which is fine. Can you print the command line you used? ...
written 12 weeks ago by Asaf4.8k
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Comment: C: Adding plasmid sequences to gtf file
... I think you're missing a new-line at the end of the GTF file ...
written 12 weeks ago by Asaf4.8k
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Comment: C: Mothur alignment issues
... Your query sequence is 213k long? ...
written 12 weeks ago by Asaf4.8k
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Comment: C: How to use SPADES assembler to de novo assembly contigs
... What is the assembly quality? Why do you need scaffolds? ...
written 12 weeks ago by Asaf4.8k
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Answer: A: Best Representation of Protein Sequences
... From my limited knowledge in NNs I think that you shouldn't represent 3D structures using features. The great benefit of NNs is that the machine can generate features. I think that you would want to have the angles between AAs as input and the AAs themselves so you'll have 20+ dimension vector. You ...
written 3 months ago by Asaf4.8k
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Comment: C: How to highlight regions in RNA second structure
... I did it some long time ago with Vienna package. They have a script to paint RNA structure according to some measure, I changed the script to read custom input. ...
written 3 months ago by Asaf4.8k
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Answer: A: What genome assembler to choose for an unpaired FASTQ data derived from a Birch
... I'll go with SPAdes, try it with and without --meta ...
written 3 months ago by Asaf4.8k

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Popular Question 13 days ago, created a question with more than 1,000 views. For Transcription Network With Edges Type
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Good Example Sequence For Psi-Blast
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Teacher 9 weeks ago, created an answer with at least 3 up-votes. For A: Help With Nussinov'S Rna Folding Algorithm
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Scholar 10 weeks ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 11 weeks ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
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Scholar 5 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
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Scholar 6 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
Commentator 8 months ago, created a comment with at least 3 up-votes. For C: What to do after an genome assembly?
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: How To Mark Specific Species On The Tree Of Life?
Scholar 9 months ago, created an answer that has been accepted. For A: What are the "Coding", "Maximal" and "Two templates" options for megablast?
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