Published Histories | chanaka | Quality Control and Filtering
Import history

Galaxy History ' Quality Control and Filtering'


DatasetAnnotation
1: imported: asp5_leaf_read1.P001.fq
136.7 Mb
format: fastqcssanger, database: ?
Info: Aspen leaves paired-end reads (2 into 50 bp) and the target insert size was 200 bp.
@SOLEXA14:5:1:1:1424#0/1
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+SOLEXA14:5:1:1:1424#0/1
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@SOLEXA14:5:1:2:1420#0/1
CNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
2: imported: asp5_leaf_read2.P001.fq
136.7 Mb
format: fastqsanger, database: ?
Info: Aspen leaves paired-end reads (2 into 50 bp) and the target insert size was 200 bp.
@SOLEXA14:5:1:1:1424#0/2
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+SOLEXA14:5:1:1:1424#0/2
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@SOLEXA14:5:1:2:1420#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
3: imported: asp5_xylem_read1.P001.fq
142.5 Mb
format: fastqsanger, database: ?
Info: Aspen xylem paired-end reads (2 into 50 bp) and the target insert size was 200 bp.
@SOLEXA14:2:1:1:234#0/1
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:1:234#0/1
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:2:1946#0/1
CNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
4: imported: asp5_xylem_read2.P001.fq
142.5 Mb
format: fastqsanger, database: ?
Info: Aspen xylem paired-end reads (2 into 50 bp) and the target insert size was 200 bp.
@SOLEXA14:2:1:1:234#0/2
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+SOLEXA14:2:1:1:234#0/2
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@SOLEXA14:2:1:2:1946#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
5: imported: Ptrichocarpa_129_gene.gtf
~520,000 lines
format: gtf, database: ?
Info: uploaded Ptrichocarpa_129_gene.gtf
1.Seqname2.Source3.Feature4.Start5.End6.Score7.Strand8.Frame9.Attributes
scaffold_1Ptrichocarpav2_0exon1263212650.+.gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1Ptrichocarpav2_05UTR1263212638.+.gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1Ptrichocarpav2_0CDS1263912650.+0gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1Ptrichocarpav2_0exon1276812891.+.gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1Ptrichocarpav2_0CDS1276812891.+0gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1Ptrichocarpav2_0exon1311713226.+.gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
6: PopGenIE random fastq extract tool on data 4 and data 4
14.3 Mb
format: fastqsanger, database: ?
@SOLEXA14:2:1:10:263#0/2
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+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
7: PopGenIE random fastq extract tool on data 4 and data 4
14.3 Mb
format: fastqsanger, database: ?
@SOLEXA14:2:1:10:263#0/2
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+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
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8: PopGenIE random fastq extract tool on data 4 and data 4
14.3 Mb
format: fastqsanger, database: ?
@SOLEXA14:2:1:2:1946#0/2
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+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
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9: PopGenIE random fastq extract tool on data 4 and data 4
14.3 Mb
format: fastqsanger, database: ?
@SOLEXA14:2:1:2:1946#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
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10: FASTQ Groomer on data 6
14.3 Mb
format: fastqsanger, database: ?
Info: Groomed 94055 sanger reads into sanger reads.
Based upon quality and sequence, the input data is valid for: solexa, sanger, illumina
Input ASCII range: 'B'(66) - 'h'(104)
Input decimal range: 33 - 71
@SOLEXA14:2:1:10:263#0/2
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+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
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11: FASTQ Groomer on data 7
14.3 Mb
format: fastqsanger, database: ?
Info: Groomed 94055 sanger reads into sanger reads.
Based upon quality and sequence, the input data is valid for: solexa, sanger, illumina
Input ASCII range: 'B'(66) - 'h'(104)
Input decimal range: 33 - 71
@SOLEXA14:2:1:10:263#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
12: FASTQ Groomer on data 8
14.3 Mb
format: fastqsanger, database: ?
Info: Groomed 93865 sanger reads into sanger reads.
Based upon quality and sequence, the input data is valid for: solexa, sanger, illumina
Input ASCII range: 'B'(66) - 'h'(104)
Input decimal range: 33 - 71
@SOLEXA14:2:1:2:1946#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
13: FASTQ Groomer on data 9
14.3 Mb
format: fastqsanger, database: ?
Info: Groomed 93865 sanger reads into sanger reads.
Based upon quality and sequence, the input data is valid for: solexa, sanger, illumina
Input ASCII range: 'B'(66) - 'h'(104)
Input decimal range: 33 - 71
@SOLEXA14:2:1:2:1946#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
14: FastQC.html
8.1 Kb
format: html, database: ?
Info: moved /mnt/spruce/storage/ftp/database/job_working_directory/002/2538/dataset_3320_files/dataset_3316.dat_fastqc/Icons/error.png to /mnt/spruce/storage/ftp/database/job_working_directory/002/2538/dataset_3320_files/error.png
moved /mnt/spruce/storage/ftp/
HTML file
15: Trim sequences on data 10
12.7 Mb
format: fastqsanger, database: ?
Info: Trimming: base 10 to 90
Input: 94055 reads.
Output: 94055 reads.
@SOLEXA14:2:1:10:263#0/2
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+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
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16: Trim sequences on data 11
12.7 Mb
format: fastqsanger, database: ?
Info: Trimming: base 10 to 90
Input: 94055 reads.
Output: 94055 reads.
@SOLEXA14:2:1:10:263#0/2
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+SOLEXA14:2:1:10:263#0/2
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@SOLEXA14:2:1:12:399#0/2
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17: FastQC.html
8.1 Kb
format: html, database: ?
Info: moved /mnt/spruce/storage/ftp/database/job_working_directory/002/2541/dataset_3323_files/dataset_3317.dat_fastqc/Icons/error.png to /mnt/spruce/storage/ftp/database/job_working_directory/002/2541/dataset_3323_files/error.png
moved /mnt/spruce/storage/ftp/
HTML file
18: Trim sequences on data 12
12.7 Mb
format: fastqsanger, database: ?
Info: Trimming: base 10 to 90
Input: 93865 reads.
Output: 93865 reads.
@SOLEXA14:2:1:2:1946#0/2
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+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
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19: FastQC.html
8.1 Kb
format: html, database: ?
Info: moved /mnt/spruce/storage/ftp/database/job_working_directory/002/2543/dataset_3325_files/dataset_3318.dat_fastqc/Icons/error.png to /mnt/spruce/storage/ftp/database/job_working_directory/002/2543/dataset_3325_files/error.png
moved /mnt/spruce/storage/ftp/
HTML file
20: Trim sequences on data 13
12.7 Mb
format: fastqsanger, database: ?
Info: Trimming: base 10 to 90
Input: 93865 reads.
Output: 93865 reads.
@SOLEXA14:2:1:2:1946#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
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@SOLEXA14:2:1:3:1703#0/2
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21: FastQC.html
8.1 Kb
format: html, database: ?
Info: moved /mnt/spruce/storage/ftp/database/job_working_directory/002/2545/dataset_3327_files/dataset_3319.dat_fastqc/Icons/error.png to /mnt/spruce/storage/ftp/database/job_working_directory/002/2545/dataset_3327_files/error.png
moved /mnt/spruce/storage/ftp/
HTML file