Moderator: Sej Modha

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Sej Modha4.1k
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Glasgow, UK
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SejModha
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Posts by Sej Modha

<prev • 632 results • page 1 of 64 • next >
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Answer: C: finding the genome of origin of a protein on genbank
... The following command would return the assembly accession number: elink -target nuccore -db protein -id "WP_043107373.1"|elink -target assembly|esummary |xtract -pattern AssemblyAccession -element AssemblyAccession GCF_000801295.1 ...
written 6 days ago by Sej Modha4.1k
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Comment: C: fasta q files or BAM files of RNA seq Oryza sativa(rice)
... Hey deeksha3696, What have you tried so far e.g Google search or NCBI SRA search? It is important to show that you have made an effort to search for the information before posting a question here. Also please read: https://www.biostars.org/p/75548/ ...
written 5 weeks ago by Sej Modha4.1k
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Comment: C: Protein sequence with GI number on comment line in FASTA
... Why are the GI numbers required? Is it not possible to use accession numbers instead? Please note that GI numbers are phased out by NCBI. https://ncbiinsights.ncbi.nlm.nih.gov/2016/07/15/ncbi-is-phasing-out-sequence-gis-heres-what-you-need-to-know/ https://www.ncbi.nlm.nih.gov/books/NBK431010/#news ...
written 7 weeks ago by Sej Modha4.1k
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Comment: C: Tool for 16s rRNA selection in metagenomic data
... > can anyone suggest a better tool for this ??? What have you tried so far? ...
written 8 weeks ago by Sej Modha4.1k
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Comment: C: when you prep DNA at stool, Were you also so?
... Hello koreanraichu! We believe that this post does not fit the main topic of this site. Not a bioinformatic question. Please post it on Seqanswers.com instead. For this reason we have closed your question. This allows us to keep the site focused on the topics that the community can help with. ...
written 9 weeks ago by Sej Modha4.1k
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Comment: C: when you prep DNA at stool, Were you also so?
... Please post your question on [Seqanswers][1] as you're likely to receive helpful suggestions from SA community. [1]: http://seqanswers.com/ ...
written 9 weeks ago by Sej Modha4.1k
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Comment: C: Need help with sequence similarity networks programmes
... Hi There, I have never used any of these programs before, however, the error for `fusedTriplets.py` states that it needs the BLAST output headers in the file. You could try to run `blastp` with `-outfmt 7` as it should include the header line for hits. ...
written 9 weeks ago by Sej Modha4.1k
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Comment: C: abacas assembly contig to chromosome
... You could try and use other scaffolding tools such as [SSPACE][1]. [1]: https://www.baseclear.com/services/bioinformatics/basetools/sspace-standard/ ...
written 10 weeks ago by Sej Modha4.1k
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Comment: C: i need help with Sequence similarity networks programmes?
... Please provide more information about the problem you're facing here by including details about sample input file(s), type of computer system you're working on etc and please spare a few minutes to read https://www.biostars.org/p/75548/ ...
written 10 weeks ago by Sej Modha4.1k
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Comment: C: How to run Bracken on windows?
... You could either install [Linux bash shell on Windows][1] or use tools like [Cygwin][2] to run this program on Windows. [1]: https://www.howtogeek.com/249966/how-to-install-and-use-the-linux-bash-shell-on-windows-10/ [2]: https://www.cygwin.com/ ...
written 10 weeks ago by Sej Modha4.1k

Latest awards to Sej Modha

Appreciated 7 days ago, created a post with more than 5 votes. For A: NCBI Protein GI to Genome Accession
Teacher 26 days ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Scholar 4 weeks ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Scholar 5 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Scholar 6 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Scholar 6 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Scholar 7 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Scholar 7 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Teacher 7 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Commentator 8 months ago, created a comment with at least 3 up-votes. For C: Help with ggtree tip labeling in R
Commentator 8 months ago, created a comment with at least 3 up-votes. For C: Help with ggtree tip labeling in R
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Scholar 8 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Scholar 9 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Teacher 10 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Appreciated 11 months ago, created a post with more than 5 votes. For A: NCBI Protein GI to Genome Accession
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession
Scholar 12 months ago, created an answer that has been accepted. For A: Convert GTF file into GFF3 file
Teacher 12 months ago, created an answer with at least 3 up-votes. For A: NCBI Protein GI to Genome Accession

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