Moderator: JC

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JC6.3k
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Mexico
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Computational Biologist

Posts by JC

<prev • 557 results • page 1 of 56 • next >
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Comment: C: Fail running blastdb and blastn on my own computer
... use something like "program\ files" ...
written 14 days ago by JC6.3k
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Comment: C: error while using cutadapt
... you need to install it ;) sudo apt-get install dos2unix ...
written 14 days ago by JC6.3k
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Comment: C: Fail running blastdb and blastn on my own computer
... I recommend to use the WSL in Win10, it works wonderfully. ...
written 14 days ago by JC6.3k
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Answer: A: The most exciting and regret moment for a bioinformatician
... I believe that is a common job interview question, in general, it is used to check with the candidate what are his/her expectations and what consider important in his/her career. It also depends on the background, a biologist entering into bioinformatics will be excited about CS stuff and vice-versa ...
written 14 days ago by JC6.3k
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Answer: A: error while using cutadapt
... As many Bioinformatics programs, it is complaining about text files in DOS format ("\r\n" marks a new line), those programs expects the file to be in Unix format ("\n" is the new line). You can convert your file with the Unix command **dos2unix**. ...
written 14 days ago by JC6.3k
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Comment: C: unique list based on multiple column
... if the columns are not at the beginning of the table, you can extract the columns using cut: cut -f2,4 *myfile* | sort | uniq > output ...
written 22 days ago by JC6.3k
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Answer: A: unique list based on multiple column
... Use sort and uniq commands: sort *myfile* | uniq > output ...
written 23 days ago by JC6.3k
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Answer: A: how are alleles represented in the sequenced reads?
... a) the reference genome generally only shows one allele (the predominant or the one sequenced). b) if the individual is heterozygous for the SNP and everything in sequencing is done correctly, yes, you expect 50%-50% c) that's why we have several iterations over the human genome versions, the firs ...
written 23 days ago by JC6.3k
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Comment: C: Converting column data to matrix
... Your text table is not using TABs, I changed the code to parse by spaces. ASUNA:~$ cat in Species Trait Value Species_1 SLA 4 Species_1 Photopath C3 Species_1 Mycorrhiza AMF Species_2 SLA 3 Species_2 Growth 10 ASUNA:~$ perl convert.pl < i ...
written 24 days ago by JC6.3k
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Answer: A: Converting column data to matrix
... #!/usr/bin/perl use strict; use warnings; my %species =(); my %traits =(); my %data =(); while (<>) { chomp; next if (/Species\s+Trait/); # Skip first line my ($sp, $tr, $vl) = split (/\s+/, $_); $species{$sp}++; $traits{$tr}+ ...
written 25 days ago by JC6.3k

Latest awards to JC

Scholar 14 days ago, created an answer that has been accepted. For A: Best way to remove contaminants to get nuclear genome
Teacher 14 days ago, created an answer with at least 3 up-votes. For A: What Do The Period . Symbols Mean In The Sequence Record Of A Fastq File
Teacher 16 days ago, created an answer with at least 3 up-votes. For A: What Do The Period . Symbols Mean In The Sequence Record Of A Fastq File
Teacher 7 weeks ago, created an answer with at least 3 up-votes. For A: What Do The Period . Symbols Mean In The Sequence Record Of A Fastq File
Commentator 10 weeks ago, created a comment with at least 3 up-votes. For C: What Should I Use Blat For?
Appreciated 5 months ago, created a post with more than 5 votes. For A: Programming Challenge - Synthetic Whole Genome Vcf
Scholar 9 months ago, created an answer that has been accepted. For A: Best way to remove contaminants to get nuclear genome
Teacher 9 months ago, created an answer with at least 3 up-votes. For A: Solid Data From Sra
Scholar 9 months ago, created an answer that has been accepted. For A: How to check whether the mate read is fully mapped or not?
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Good Answer 10 months ago, created an answer that was upvoted at least 5 times. For A: Programming Challenge - Synthetic Whole Genome Vcf
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: What Do The Period . Symbols Mean In The Sequence Record Of A Fastq File
Teacher 13 months ago, created an answer with at least 3 up-votes. For A: Solid Data From Sra
Teacher 20 months ago, created an answer with at least 3 up-votes. For A: What Do The Period . Symbols Mean In The Sequence Record Of A Fastq File
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Scholar 2.4 years ago, created an answer that has been accepted. For A: Best way to remove contaminants to get nuclear genome
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