User: jflopezfernandez

Reputation:
30
Status:
New User
Location:
Twitter:
@JFloppyz
Last seen:
2 months, 1 week ago
Joined:
8 months, 2 weeks ago
Email:
j***************@gmail.com

The only thing I know about Biology is that DNA exists, but I love writing parsers in C and C++, and  came across this site looking for a cool new project to take on. I'm excited to learn about this field that a week ago I had no idea even existed.

Posts by jflopezfernandez

<prev • 14 results • page 1 of 2 • next >
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Answer: A: Why Don'T We Use Binary Format?
... A factor that I haven't seen mentioned regarding why we don't represent sequences using two bits per base is because this would result in a [Hamming distance][1] of 1 bit between bases, and since all binary values from 0 to 3 are valid in this scenario, a "bit flip" error like this would go complete ...
written 11 weeks ago by jflopezfernandez30
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Answer: A: Bioinformatics; encrypted hard drive?
... If I understand your question correctly, the data simply needs to be stored on an encrypted hard drive. If that's the case, then the latency from the intermediate encryption and decryption steps should be almost negligible. If at all possible, you should definitely try to get an encrypted SSD drive, ...
written 11 weeks ago by jflopezfernandez30
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Comment: C: Biopython installation/set path fails in conda env
... Is biopython listen as one of the installed packages when you run `conda list -n models` (before activating the environment)? python and conda use virtual environments so you can make and throw away changes easily, but this flexibility comes at the cost of simplicity. Simply checking the PATH varia ...
written 12 weeks ago by jflopezfernandez30
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Comment: C: ls function in windows bash terminal not showing all files
... Hey, glad to hear you figured it out. If I can offer a pointer or two, by convention you probably want your folders at 755 and files at 644. A 755 means that everyone can read and write to the directories, but only you have write access. A 644 for your files means that everyone has read access, but ...
written 8 months ago by jflopezfernandez30
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Comment: C: ls function in windows bash terminal not showing all files
... Try using ls -a to show hidden files as well. ...
written 8 months ago by jflopezfernandez30
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Comment: C: How to extract a entire row based on a single key word from a csv or excel file?
... Remember that a regular expression is written as /something/, so your regex doesn't make sense. You can either split them up into their own individual regex like this: sed -n -e '/avrbs3/p;/avrbs2/p;/xop/p' ./file' or, more logically in this case, simply group the strings with parentheses and ...
written 8 months ago by jflopezfernandez30
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Comment: C: How to extract a entire row based on a single key word from a csv or excel file?
... Oh, I thought you only needed to get it the first time. If you need to keep matching it over and over, you can do that a few different ways. You can use Dr. Dondrup's method, just simply take out the second part where you pipe to 'head', you can use my method without calling exit, or you can use sed ...
written 8 months ago by jflopezfernandez30
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Comment: C: hisat2-align exited with value 1
... Here is the source file for the program; this is hisat2.cpp. ![Notice that this is the error message you are getting.][1] To find your error, we just have to go back up a little. ![enter image description here][2] You can see here that the function is dealing with this IO error (getting too many ar ...
written 8 months ago by jflopezfernandez30
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Comment: C: TCGA UUIDS to TCGA barcode (SampleID) in R
... Can you post your code? ...
written 8 months ago by jflopezfernandez30
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Comment: C: Top hit from phmmer
... Are you just looking for the longest substring in the sequence on each iteration? ...
written 8 months ago by jflopezfernandez30

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Autobiographer 8 months ago, has more than 80 characters in the information field of the user's profile.

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