User: martyferr90

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martyferr9030
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Posts by martyferr90

<prev • 34 results • page 1 of 4 • next >
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Comment: C: bigWigToWig operation fail
... I think that you were right! I trusted the software's documentation. I download another wgEncodeCrgMapabilityAlign75mer.bigWig and it seems to work. Thank you for your help! ...
written 9 weeks ago by martyferr9030
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bigWigToWig operation fail
... Hi all! I'm trying to use bigWigToWig tool, from UCSC, but I receive this error: udc couldn't read 4 bytes from wgEncodeCrgMapabilityAlign75mer.bigWig, did read 0 My file is wgEncodeCrgMapabilityAlign75mer.bigWig and it's a 95Mb file. The permission of the bigWigToWig script is -rwxr-xr-x and ...
bigwigtowig wig written 10 weeks ago by martyferr9030
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Comment: C: Multiple fastq alignment with bowtie2
... This is the output of ls -l /home/utente/test/test_fastq/*.fastq drwxr-xr-x 2 utente utente 4096 dic 11 11:59 out -rw-rw-rw- 1 utente utente 1716298636 dic 11 11:18 bam012.fastq -rw-rw-rw- 1 utente utente 1694712150 dic 11 11:19 bam004.fastq where out is the output directory. An ...
written 10 weeks ago by martyferr9030
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Comment: C: Multiple fastq alignment with bowtie2
... I done: chmod 755 out/ drwxr-xr-x 2 utente utente 4096 dic 11 11:59 out Then for i in $(/home/utente/test/test_fastq/*.fastq) > do > bowtie2 -p 4 -x /home/utente/bowtie2/hg19 ${i} | samtools sort -o ${i%%.fastq}.bam - > done and Permission denied W ...
written 10 weeks ago by martyferr9030
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Comment: C: Multiple fastq alignment with bowtie2
... drwxr-xr-x 2 utente utente 4096 dic 11 11:19 test_fastq This is the output directory (the same of the input files) ...
written 10 weeks ago by martyferr9030
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Comment: C: Multiple fastq alignment with bowtie2
... -rw-rw-rw- 1 utente utente 1716298636 dic 11 11:18 bam012.fastq -rw-rw-rw- 1 utente utente 1694712150 dic 11 11:19 bam004.fastq I tried with -r--r--r- permission too and still the same error! ...
written 10 weeks ago by martyferr9030
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Comment: C: Multiple fastq alignment with bowtie2
... It's still permission denied. Where I'm wrong? ç_ç ...
written 10 weeks ago by martyferr9030
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Comment: C: Split BAM file from more sample
... Yes, this data was produce by Torrent Suite. Honestly I don't know, I only know that this file is from a specific analysis with a specific workflow. They ask to me if I could analyze this file, but for my analysis I need 1 file per sample, I tried to analyze the entire unique file, but I can't. Mayb ...
written 11 weeks ago by martyferr9030
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Comment: C: Split BAM file from more sample
... Yep, you're right! It a strange output, I have 1 big bam file, and the others are very small, but I have just this informations, there aren't any process that I can do for split this file?? ...
written 11 weeks ago by martyferr9030
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Comment: A: Split BAM file from more sample
... This is the 'ls -al' output. -rw-r--r-- 1 user user 3092 dic 7 16:49 out.L7IZC.10.bam -rw-r--r-- 1 user user 3092 dic 7 16:49 out.L7IZC.11.bam -rw-r--r-- 1 user user 3092 dic 7 16:49 out.L7IZC.12.bam -rw-r--r-- 1 user user 3092 dic 7 16:49 out.L7IZC.1 ...
written 11 weeks ago by martyferr9030

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