User: star715

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star7150
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Posts by star715

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Assemble multiple contigs to single
... Hi, I assembled pacbio reads using SMRTlink and got 15 contigs. When I blast them with each other, it seems they share 30-50% of the regions among each other. Now I do not know how to assemble them together to make a long contig. How can I reduce the number of these contigs? ...
contigs microbial pacbio genome assembly written 11 days ago by star7150
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Genome assembly of pacbio reads with SMRT Link
... I have been trying to do a genome assembly of a microbial genome around 9Mbp. I am using **SMRT Link** for the purpose. Can anyone suggest me the best selection of parameters **(seed length cutoff, FALCON cfg overrides, seed coverage, minimum concordance)** for a good assembly of the genome of that ...
pacbio hgap tool smrtlink genome assembly written 14 days ago by star7150 • updated 14 days ago by Asaf6.5k
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blast makedb database creation error
... I wanted to create a blast database using the command: makeblastdb -in filename.fasta -input_type fasta -dbtype prot -parse_seqids -out filename.fasta -title xyz but I got an error saying > BLAST Database creation error: Near line 65951, the local id is too > long. Its length is 51 but ...
database blast written 6 months ago by star7150 • updated 5 months ago by Biostar ♦♦ 20
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Getting all sequences for a gene
... How can I use the command line to get the accession ids for sequences of a particular gene from all bacterial species? ...
gene entrez geneid written 8 months ago by star7150

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