Galaxy | Published History | Quality Control and Filtering

Published Histories | chanaka | Quality Control and Filtering

Import history

Galaxy History ' Quality Control and Filtering'

Dataset

Annotation

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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:5:1:1:1424#0/1
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:5:1:1:1424#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:1:234#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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.Seqname 2.Source 3.Feature 4.Start 5.End 6.Score 7.Strand 8.Frame 9.Attributes
scaffold_1 Ptrichocarpav2_0 exon 12632 12650 . + . gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1 Ptrichocarpav2_0 5UTR 12632 12638 . + . gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1 Ptrichocarpav2_0 CDS 12639 12650 . + 0 gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1 Ptrichocarpav2_0 exon 12768 12891 . + . gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1 Ptrichocarpav2_0 CDS 12768 12891 . + 0 gene_name "POPTR_0001s00200"; transcript_id "POPTR_0001s00200.1";
scaffold_1 Ptrichocarpav2_0 exon 13117 13226 . + . 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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:10:263#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:12:399#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN
+SOLEXA14:2:1:2:1946#0/2
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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
BBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBBB
@SOLEXA14:2:1:3:1703#0/2
NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN

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

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chanaka

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