User: normanreppingen

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Posts by normanreppingen

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Comment: C: Results of two sequential bash pipes into a variable instead of a file?
... Hi! Your gut feeling is very reliable. I implemented your suggestion to just open the file. I almost accepted to produce 50k nonsensical files, but then it came to me that i also could delete them in that loop. 😂 So, this thing is now using two files to compute the pearson correlation, using the s ...
written 8 months ago by normanreppingen0
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Comment: C: Results of two sequential bash pipes into a variable instead of a file?
... Dear h.mon, thank you very much for your reply and the brillant idea with echo $input. Echo input looks good. But now what happens is the following: The perl script is taking the first value of the first file as a filename. Then it takes the first value from the second file as a filename. So, the i ...
written 8 months ago by normanreppingen0
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Results of two sequential bash pipes into a variable instead of a file?
... Hi! I would like to put the result of a pipe into a variable instead of a file. But it does not work as intended. The well working script with the pipe resulting in a file is like that: for sample in *.csv; do pr -m -t -s\ $sample Ldha.csv | Awk '{print $6"\t"$13}' | sed 's/\./,/g'| ...
bash variable script shell pipe written 8 months ago by normanreppingen0 • updated 5 months ago by Biostar ♦♦ 20
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Comment: C: bowtie2 error "Read xyz has more quality values than read characters" -> signal
... Dear ATpoint, that was very quick! So i would have messed in vain... I have a mm9 mouse genome somewhere, i will try this. Thank you very much! Best regards, Norman (who also dislikes western blots a lot) ...
written 9 months ago by normanreppingen0
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bowtie2 error "Read xyz has more quality values than read characters" -> signal 6 (ABRT)
... Hi, i used bowtie2 without problems on many files which worked great, now it gives the error message: "Read xyz has more quality values than read characters" I re - downloaded the fastq file, same problem. head SRR1191170_NF.fastq gives the following: @SRR1191170.1 1/1 T0121220202102 ...
bowtie2 fastq rna-seq written 9 months ago by normanreppingen0

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