User: anikcropscience
anikcropscience • 30
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Posts by anikcropscience
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... Thank you very much for helping me out. ...
written 29 days ago by
anikcropscience • 30
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... After running your command, I got the following output:
-rw-r--r-- 1 adutta staff 421M Jul 12 22:06 SRR4907761_1.fastq.gz
-rw-r--r-- 1 adutta staff 987M Jul 12 21:05 SRR4907762_1.fastq.gz
-rw-r--r-- 1 adutta staff 697M Jul 12 20:37 SRR4907763_1.fastq.gz
-rw-r--r-- 1 adu ...
written 29 days ago by
anikcropscience • 30
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... Hi, yes I am copying the script from somewhere. But they do not explain it. So after I run the first step as you showed, I get the following output:
Raw_seq adutta$ for infile in *_1.fastq.gz
> do
> base=$(basename ${infile} _1.fastq.gz)
> echo "$infile $base"
> ...
written 29 days ago by
anikcropscience • 30
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... Hi, so I added that command you suggested, but it still produces the same message. Nothing has changed. Any further suggestions, please? ...
written 29 days ago by
anikcropscience • 30
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... So should I write `${base}_1.fastq.gz` before the `${base}_2.fastq.gz`? ...
written 29 days ago by
anikcropscience • 30
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... How can I do that? Like just type that command after the "for...." and before "do" command? ...
written 29 days ago by
anikcropscience • 30
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... Hello, I am running Trimmomatic for trimming paired-end whole-genome sequence data in a loop. The code is the following:
adutta$ cd /Users/adutta/Desktop/Pangenome_kmer_paper/Raw_seq
adutta$ for infile in *_1.fastq.gz
> do
> ...
written 29 days ago by
anikcropscience • 30
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... Thank you very much for those two informative links. Yes, I can feel the difficulty level already. ...
written 4 weeks ago by
anikcropscience • 30
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... Thanks a lot. I will check those. ...
written 4 weeks ago by
anikcropscience • 30
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... Not actually thrown, I will get help later on. But I want to try out myself first. As there are quite a few approaches and tools, I was not sure which one to use. That is why I asked for some tutorials. I do not expect anyone to teach me to step by step procedure. I was trying to get some links for ...
written 4 weeks ago by
anikcropscience • 30
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