User: Linkrw12

gravatar for Linkrw12
Linkrw1220
Reputation:
20
Status:
New User
Location:
Philadelphia, PA
Website:
https://www.linkedin.c...
Last seen:
1 week, 4 days ago
Joined:
2 years, 4 months ago
Email:
r************@yahoo.com

Posts by Linkrw12

<prev • 10 results • page 1 of 1 • next >
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Answer: A: BEDtools error: file has non positional records, which are only valid for the gr
... I found the solution. I made A.bed in Windows and B.bed in Linux, so the two files had conflicting end characters. When I turned the Windows end characters into Linux end characters, Bedtools started working properly again ...
written 4 months ago by Linkrw1220
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Comment: C: BEDtools error: file has non positional records, which are only valid for the gr
... I just checked, and they are. But I found out that the end characters for A.bed are windows end characters and B.bed are Linux end characters. After I fixed this issue, the program worked. ...
written 4 months ago by Linkrw1220
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BEDtools error: file has non positional records, which are only valid for the groupBy tool
... Hello, I am trying to use bedtools subtract in the following way: $ bedtools subtract -a A.bed -b B.bed but I get the following error: ERROR: file A.bed has non positional records, which are only valid for the groupBy tool When I tried to Google the answer, none of the solutions provid ...
bedtools written 4 months ago by Linkrw1220
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Comment: C: How to have frequency displayed on the Y axis in weblogo
... did you try checking the "frequency plot" box on the options? ...
written 8 months ago by Linkrw1220
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Answer: A: Muscle alignment problem
... Your answer looks like the MSA is in Phylip format, which will truncate the sequence header to the first 10 characters. If you need to keep in Phylip format, you should opt for a relaxed Phylip format, which cannot be performed in MUSCLE, unfortunately... However, you can output your MSA in a FAS ...
written 13 months ago by Linkrw1220
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Comment: C: How can I split a file in R?
... I would recommend asking this on Stack Overflow. You'd probably get a better response there provided that you give a reproducible example of the code you've already tried ...
written 13 months ago by Linkrw1220
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Answer: A: Install DESeq2 and edgeR with Anaconda
... Adding this for completeness sake: Sometimes Bioconductor packages will not be in the bioconda repo and when I tried Sean's solution, my computer yelled at me (I also don't have sudo privaleges). I ended up downloading the source code into the anaconda R library directory and installing it from the ...
written 14 months ago by Linkrw1220
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Comment: C: unhashable type: 'SeqRecord'
... You're right! I modified the end of the find_kmer function and it worked wonderfully! Thank you :) ...
written 2.3 years ago by Linkrw1220
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Comment: C: unhashable type: 'SeqRecord'
... I would like to do that, but unfortunately, I need all the information in the 'ReqSeq' object to funnel the output to a fasta file. On my home computer, the 'ReqSeq' object would know that the function is being applied to the sequence found within the ReqSeq object (without the .seq extension) and m ...
written 2.3 years ago by Linkrw1220
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unhashable type: 'SeqRecord'
... Hello everybody, Using Python, I'm trying to create 30-mers from DNA sequences in a fasta file in order to run a local BLAST analysis on it later. So the end goal is to have a list that contains many lists of these 30-mer sequences that I can turn into a fasta file. To do this, I need to maintain ...
python biopython written 2.3 years ago by Linkrw1220 • updated 2.3 years ago by WouterDeCoster35k

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Scholar 4 months ago, created an answer that has been accepted. For A: BEDtools error: file has non positional records, which are only valid for the gr

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