User: MarcinKosinski

Reputation:
10
Status:
New User
Location:
Poland
Last seen:
3 years, 6 months ago
Joined:
4 years, 9 months ago
Email:
k********@student.mini.pw.edu.pl

Posts by MarcinKosinski

<prev • 9 results • page 1 of 1 • next >
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Comment: C: How To Download The Entire Human Gene List With Their Chromosomal Location
... mkosinski@mkosinski-E540:~$ curl -s "ftp://ftp.sanger.ac.uk/pub/gencode/release_18/gencode.v18.annotation.gtf.gz" | gunzip -c > Human_genes.gtf gzip: stdin: unexpected end of file ...
written 3.6 years ago by MarcinKosinski10
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Comment: C: sra toolkit error: path incorrect while opening manager within database module
... Ok it worked for this file :) Thanks! mkosinski@mkosinski-E540:~$ fastq-dump.2.1.7 ~/WCO/Kasia/SRR000021.sra Written 304922 spots for /home/mkosinski/WCO/Kasia/SRR000021.sra Written 304922 spots total ...
written 4.7 years ago by MarcinKosinski10 • updated 7 months ago by RamRS27k
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Comment: C: sra toolkit error: path incorrect while opening manager within database module
... I've checked `/usr/bin` localization and I have the same error ``` mkosinski@mkosinski-E540:/usr/bin$ pwd /usr/bin mkosinski@mkosinski-E540:/usr/bin$ ls -l *fastq-dump.2.1.7 -rwxr-xr-x 1 root root 93384 cze 15 2012 fastq-dump.2.1.7 mkosinski@mkosinski-E540:/usr/bin$ ./fastq-dump.2.1.7 /home/mkosin ...
written 4.7 years ago by MarcinKosinski10 • updated 7 months ago by RamRS27k
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Comment: C: sra toolkit error: path incorrect while opening manager within database module
... I used sudo apt-get install sra-toolkit to install this kit. How should I know where is my exutable dir :)? ...
written 4.7 years ago by MarcinKosinski10
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Comment: C: sra toolkit error: path incorrect while opening manager within database module
... Yeah but when I run `fastq-dump.2.1.7 -version` it looks to work ...
written 4.7 years ago by MarcinKosinski10 • updated 7 months ago by RamRS27k
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Comment: C: sra toolkit error: path incorrect while opening manager within database module
... Oh suure, it might be the problem :P ...
written 4.7 years ago by MarcinKosinski10
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sra toolkit error: path incorrect while opening manager within database module
... I am using [SRA Toolkit](http://www.ncbi.nlm.nih.gov/books/NBK158900/) to convert `.sra` files to `fastq` files but when I am trying to use `fastq-dump` procedure there occures a problem. Does anyone have seen such error? What does it mean and how can I overcome this error?     2015-10-19T10:05:00 ...
sra fastq sratoolkit written 4.7 years ago by MarcinKosinski10 • updated 3.5 years ago by sourabhdattawad0
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Comment: C: Ensembl Ids To Gene Name Conversion
... These applications are no longer working ...
written 4.7 years ago by MarcinKosinski10
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No genes' ID in peak annotations during ChiP-Seq with ChIPpeakAnno R package
... I am trying to perfom Chip-Seq Analysis which is greatly described in that conversation: http://biology.stackexchange.com/questions/16701/introduction-to-chip-seq . The same as autor of mentioned question I am a student of Applied Mathematics and I am doing my best to enter bioinformatics fields. I ...
annotation chip-seq written 4.8 years ago by MarcinKosinski10 • updated 2.1 years ago by Biostar ♦♦ 20

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Popular Question 4.7 years ago, created a question with more than 1,000 views. For sra toolkit error: path incorrect while opening manager within database module

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