User: dugong

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dugong0
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Posts by dugong

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Which is the best pipeline for demultiplexing sample hashing in single-cell sequencing?
... ## Which is the best pipeline for demultiplexing sample hashing in single-cell sequencing (to assign cells to samples)? Antibody- or lipid-conjugated poly-A-RNA barcodes allow pooling many samples in a single microfluidic single-cell library preparation run, where samples can later be digitally dem ...
single cell sample barcoding rna-seq written 7 days ago by dugong0
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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 2.9 years ago by dugong0 • updated 2.9 years ago by Emily_Ensembl21k
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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 3.0 years 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/_s ...
written 4.9 years ago by dugong0 • updated 10 months ago by RamRS30k
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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 cut ...
written 4.9 years ago by dugong0 • updated 10 months ago by RamRS30k
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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 4.9 years ago by dugong0 • updated 4.9 years ago by ebrown1955300

Latest awards to dugong

Popular Question 2.9 years ago, created a question with more than 1,000 views. For Installing cutadapt on OS X
Popular Question 4.9 years ago, created a question with more than 1,000 views. For Installing cutadapt on OS X

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