User: cpad0112

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Posts by cpad0112

<prev • 933 results • page 1 of 94 • next >
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Comment: C: Error for reading .gtf file in R
... It seems program has a trouble in reading gtf from gencode (both primary and main). I checked both v22 and v28 (latest). Alternate is to use gtf from Ensembl:. If you don't want to use ensembl annotations, i have provided another way to use the gencode gtf. For using Ensembl annotation, Download gtf ...
written 15 hours ago by cpad01125.2k
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Comment: C: Repeated information on specific parameters of the INFO field - VCF files - EBiv
... Original VCF was functionally annotated with [VEP][1] as the tags in the OP (original post) are inline with VEP output. Duplicate entries you have posted at the start are not present in VCF file you have shared. Apparently, that duplicate p syntax might be due to multiple transcripts being affecte ...
written 18 hours ago by cpad01125.2k
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Comment: C: Pandaseq in a bash for-loop - Error nofile
... @fibar: post example file list. File list you have and code you are using. please don't post screenshots unless it is error. ...
written 19 hours ago by cpad01125.2k
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Comment: C: Error for reading .gtf file in R
... I think this issue is same as: https://www.biostars.org/p/313777/. Instead of Rstudio, try the code in R console. ...
written 22 hours ago by cpad01125.2k
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Comment: C: R Package Problem with Swirl: library("swirl") Issue
... Well, this is not an answer to OP issue. But do update R. It is 3.1.2 and current version is 3.5. It could be as simple as antivius + google desktop indexing as described here https://stackoverflow.com/questions/5700505/windows-7-update-packages-problem-unable-to-move-temporary-installation and htt ...
written 1 day ago by cpad01125.2k
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Comment: C: python script error: ImportError: No module named pysam
... I think OP is on OS X. last line from error (copy/pasted): Command "/System/Library/Frameworks/Python.framework/Versions/2.7/Resources/Python.app/Contents/MacOS/Python -u -c "import setuptools, tokenize;__file__='/private/var/folders/tz/89qgqyd97wj1cdrpq_d62n100000gr/T/pip-install-qZhLf2/pysa ...
written 1 day ago by cpad01125.2k
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Comment: C: ERROR:Encountered internal Bowtie 2 exception (#1) & hisat-align exited with val
... 1. Please navigate to samtools folder where samtools executable is present and type `./samtools.` If it works, then you have samtools binary 2. Once it works, then type `realpath samtools` 3. Then type `echo $PATH` Output from realpath should be in path output. ...
written 1 day ago by cpad01125.2k
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Comment: C: ERROR:Encountered internal Bowtie 2 exception (#1) & hisat-align exited with val
... @OP: Locate the folder where the samtools is installed. Add that folder path to your .bash_profile or .bashrc. ...
written 1 day ago by cpad01125.2k
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Comment: C: R Package Problem with Swirl: library("swirl") Issue
... Probably as separate x and y chromosomes ...
written 1 day ago by cpad01125.2k
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Answer: C: listing library names
... Any one them: $ parallel echo {= s/\\..*// =} ::: *.gz| sort -ur $ for i in *.gz; do echo ${i%%.*};done | sort -ur $ ls *.gz| cut -f1 -d"." | sort -ur ...
written 1 day ago by cpad01125.2k

Latest awards to cpad0112

Scholar 13 hours ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Teacher 11 days ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Scholar 12 days ago, created an answer that has been accepted. For A: which feature is considered as expression level ?
Scholar 12 days ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Teacher 14 days ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Commentator 15 days ago, created a comment with at least 3 up-votes. For C: Problem installing Rgraphviz in R
Appreciated 22 days ago, created a post with more than 5 votes. For C: can someone read this result to me
Good Answer 22 days ago, created an answer that was upvoted at least 5 times. For C: can someone read this result to me
Scholar 24 days ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Teacher 4 weeks ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Teacher 5 weeks ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Commentator 6 weeks ago, created a comment with at least 3 up-votes. For C: Problem installing Rgraphviz in R
Scholar 7 weeks ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Scholar 11 weeks ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Scholar 3 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Scholar 4 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Scholar 4 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Teacher 4 months ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Scholar 5 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Teacher 5 months ago, created an answer with at least 3 up-votes. For A: convert SNP calls to amino acid change
Scholar 5 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps
Good Answer 5 months ago, created an answer that was upvoted at least 5 times. For C: can someone read this result to me
Appreciated 5 months ago, created a post with more than 5 votes. For C: can someone read this result to me
Scholar 5 months ago, created an answer that has been accepted. For A: .fai file generation for a vcf file containing snps

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