Moderator: 5heikki

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5heikki7.4k
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Posts by 5heikki

<prev • 1,025 results • page 1 of 103 • next >
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Answer: A: awk specific line from another file
... This is actually a job for join join -t $'\t' -1 1 -2 4 -o 2.1,2.2,2.3,2.4,2.5 \ <(sort -g file1) \ <(sort -t $'\t' -k4,4g file2) \ > out ...
written 19 days ago by 5heikki7.4k
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Comment: C: Downloading NCBI data with geographic location tag
... I don't think NCBI provides such metadata ...
written 25 days ago by 5heikki7.4k
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4
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Answer: A: database for reference genome
... ftp://ftp.ncbi.nlm.nih.gov/genomes/all/GCA/000/413/155/GCA_000413155.1_DPV01 ...
written 26 days ago by 5heikki7.4k
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Comment: C: Blastn Gives Different Results Based on Database Size
... `-max_target_seqs` (default 500) can also be a thing here.. ...
written 26 days ago by 5heikki7.4k
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Comment: C: Multiple alignment: find and reverse all complement strands
... Blast them all against a reference sequence that is in 5'-3', use -outfmt '6 qacc sstart send' | awk 'BEGIN{FS="\t"}{if($2>$3){print $1}}' > all_3_5.txt ...
written 27 days ago by 5heikki7.4k
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Comment: C: Tile orientation in circos
... It's been many years since I used circos, but afair there's no way to place arrows on tracks. You could put your CDS on separate tracks though.. ...
written 4 weeks ago by 5heikki7.4k
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Answer: A: Exporting sequences from Excel
... Assuming 1st column contains the number and the 2nd column contains the sequence: 1. Export the file as tab-separated values 2. `awk 'BEGIN{FS="\t";OFS="\n"}{print ">"$1,$2}' exportedFile.tsv > seqs.fna` ...
written 4 weeks ago by 5heikki7.4k
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Comment: C: Genome assembly N50
... No contig is L50. [Wikipedia][1] puts it well: *L50 count is defined as the smallest number of contigs whose length sum produces N50* [1]: https://en.wikipedia.org/wiki/N50,_L50,_and_related_statistics ...
written 4 weeks ago by 5heikki7.4k
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Comment: C: Genome assembly N50
... OP's definition of N50 is incorrect. N50 is the length of the **shortest contig** that together with all the contigs of the assembly that are the same length or longer than it cover 50% of the genome assembly ...
written 4 weeks ago by 5heikki7.4k
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Comment: C: remote linux machine access
... Install mobxterm and `ssh username@serveraddress` ...
written 5 weeks ago by 5heikki7.4k

Latest awards to 5heikki

Popular Question 4 days ago, created a question with more than 1,000 views. For Bootsrapped tree from a distance matrix
Teacher 6 days ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 13 days ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 13 days ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 5 weeks ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 6 weeks ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 7 weeks ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Commentator 9 weeks ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Teacher 3 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 3 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Oracle 3 months ago, created more than 1,000 posts (questions + answers + comments).
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 6 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 6 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 6 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Commentator 8 months ago, created a comment with at least 3 up-votes. For C: Finding a sequence in a fasta file
Teacher 8 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?
Scholar 8 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Scholar 8 months ago, created an answer that has been accepted. For A: The best way to share scientific findings with community
Great Question 8 months ago, created a question with more than 5,000 views. For Best tools for circular genome visualization?
Scholar 9 months ago, created an answer that has been accepted. For A: The best way to share scientific findings with community
Scholar 9 months ago, created an answer that has been accepted. For A: Rfam, cmsearch and cmscan
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: If you have a chance to ask questions to the CEO of Illumina, what would you do?

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