User: dugong

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dugong0
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Posts by dugong

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Find all domains in a list of proteins
... I would like to get a list of all domains of all proteins in my list. Browsing STRING, I noticed from the the domain structures (displays images from SMART database) that there are a lot of GEF-domians, but I cannot batch extract or batch search. I found no batch search on SMART or PFAM. I could ...
domain protein written 20 months ago by dugong0 • updated 20 months ago by Emily_Ensembl18k
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Answer: A: fasta - reverse complement sequence
... Based on Pierre's answer here is a working solution for multi-line fasta. ### Changes: - You do not lose undetermined sequences "N"-s - Works on multi line fasta: it escapes transformation on lines starting with '>' #### As a 'one'-liner: `cat play.fa | while read L; do if [[ $L =~ ^'> ...
written 20 months ago by dugong0
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Comment: C: Installing cutadapt on OS X
... Processing cutadapt Writing .../cutadapt/setup.cfg Running setup.py -q bdist_egg --dist-dir /Users/abelvertesy/cutadapt/egg-dist-tmp-6YXf0S warning: no files found matching 'cutadapt/_align.so' warning: no files found matching 'cutadapt/_qualtrim.so' warning: no files found matching 'cutadapt/_seqi ...
written 3.7 years ago by dugong0
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Answer: A: Installing cutadapt on OS X
... Hello Guys, thanks for the help!   @John: it still keeps hanging   Python 2.7.10 (v2.7.10:15c95b7d81dc, May 23 2015, 09:33:12) pip install --user --upgrade cutadapt Collecting cutadapt   Using cached cutadapt-1.8.3.tar.gz Installing collected packages: cutadapt   Running setup.py install for ...
written 3.7 years ago by dugong0
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Installing cutadapt on OS X
... Dear All, I am trying to install cutadapt on OS X (Mavericks), Python 2.7.5. I tried all the options under readthedocs, nothing worked and did not find anything that gives me a clue how to fix it. pip keeps hanging pip install --user --upgrade cutadapt /Library/Python/2.7/site-package ...
software error rna-seq written 3.7 years ago by dugong0 • updated 3.7 years ago by ebrown1955300

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Popular Question 3.7 years ago, created a question with more than 1,000 views. For Installing cutadapt on OS X

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