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genetica:bioinf_process:fastqc [2015/03/12 13:26]
vifehe
genetica:bioinf_process:fastqc [2020/08/04 10:58] (current)
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 +Because examining each file is time consuming, I've created a couple of scripts with which we can extract the information of our interest:
  
 +[[genetica:bioinf_process:fastqc:script1]] - to summarize output from summary.txt
  
- +[[genetica:bioinf_process:FASTQC:script2]] - to summarize output from fastqc_data.txt
-<code> +
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-<code> +
-[vifehe@detritus bonn_data]$ cat Bonn_0_fastq/fastqcRawdata/fastqcRawdata_P1/SN7640211_14074_P1A01_MND1014_1_sequence.fq_fastqc_folder/summary.txt  +
-PASS Basic Statistics SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Per base sequence quality SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Per sequence quality scores SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Per base sequence content SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Per base GC content SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-WARN Per sequence GC content SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Per base N content SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Sequence Length Distribution SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-WARN Sequence Duplication Levels SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Overrepresented sequences SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-PASS Kmer Content SN7640211_14074_P1A01_MND1014_1_sequence.fq.gz +
-</code> +
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-<code> +
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-</done> +
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genetica/bioinf_process/fastqc.1426166788.txt.gz · Last modified: 2020/08/04 10:48 (external edit)