Workflow Type: Galaxy
Open
Galaxy workflow
Inputs
ID | Name | Description | Type |
---|---|---|---|
AOPEP_and_CHD8_sequences_20220907.zip?download=1 | AOPEP_and_CHD8_sequences_20220907.zip?download=1 | n/a |
|
Prim | Prim | n/a |
|
Steps
ID | Name | Description |
---|---|---|
2 | Unzip | toolshed.g2.bx.psu.edu/repos/imgteam/unzip/unzip/6.0+galaxy0 |
3 | Filter FASTA | toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/2.3 |
4 | Filter FASTA | toolshed.g2.bx.psu.edu/repos/galaxyp/filter_by_fasta_ids/filter_by_fasta_ids/2.3 |
5 | Extract element identifiers | toolshed.g2.bx.psu.edu/repos/iuc/collection_element_identifiers/collection_element_identifiers/0.0.2 |
6 | Degap.seqs | toolshed.g2.bx.psu.edu/repos/iuc/mothur_degap_seqs/mothur_degap_seqs/1.39.5.0 |
7 | Degap.seqs | toolshed.g2.bx.psu.edu/repos/iuc/mothur_degap_seqs/mothur_degap_seqs/1.39.5.0 |
8 | Regex Find And Replace | toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.3 |
9 | Regex Find And Replace | toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.3 |
10 | Reverse-Complement | toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.2+galaxy0 |
11 | Filter collection | __FILTER_FROM_FILE__ |
12 | Filter collection | __FILTER_FROM_FILE__ |
13 | ab1 to FASTQ converter | toolshed.g2.bx.psu.edu/repos/ecology/ab1_fastq_converter/ab1_fastq_converter/1.20.0 |
14 | ab1 to FASTQ converter | toolshed.g2.bx.psu.edu/repos/ecology/ab1_fastq_converter/ab1_fastq_converter/1.20.0 |
15 | seqtk_trimfq | toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_trimfq/1.3.1 |
16 | seqtk_trimfq | toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_trimfq/1.3.1 |
17 | FASTQ Groomer | toolshed.g2.bx.psu.edu/repos/devteam/fastq_groomer/fastq_groomer/1.1.5 |
18 | Sort collection | __SORTLIST__ |
19 | Sort collection | __SORTLIST__ |
20 | Reverse-Complement | toolshed.g2.bx.psu.edu/repos/devteam/fastx_reverse_complement/cshl_fastx_reverse_complement/1.0.2+galaxy0 |
21 | seqtk_mergepe | toolshed.g2.bx.psu.edu/repos/iuc/seqtk/seqtk_mergepe/1.3.1 |
22 | FASTQ Groomer | toolshed.g2.bx.psu.edu/repos/devteam/fastq_groomer/fastq_groomer/1.1.5 |
23 | FASTQ to Tabular | toolshed.g2.bx.psu.edu/repos/devteam/fastq_to_tabular/fastq_to_tabular/1.1.5 |
24 | Tabular-to-FASTA | toolshed.g2.bx.psu.edu/repos/devteam/tabular_to_fasta/tab2fasta/1.1.1 |
25 | Align sequences | toolshed.g2.bx.psu.edu/repos/iuc/qiime_align_seqs/qiime_align_seqs/1.9.1.0 |
26 | Consensus sequence from aligned FASTA | toolshed.g2.bx.psu.edu/repos/ecology/aligned_to_consensus/aligned_to_consensus/1.0.0 |
27 | Merge.files | toolshed.g2.bx.psu.edu/repos/iuc/mothur_merge_files/mothur_merge_files/1.39.5.0 |
28 | Merge.files | toolshed.g2.bx.psu.edu/repos/iuc/mothur_merge_files/mothur_merge_files/1.39.5.0 |
29 | Regex Find And Replace | toolshed.g2.bx.psu.edu/repos/galaxyp/regex_find_replace/regex1/1.0.3 |
30 | Align sequences | toolshed.g2.bx.psu.edu/repos/iuc/qiime_align_seqs/qiime_align_seqs/1.9.1.0 |
31 | NCBI BLAST+ blastn | toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastn_wrapper/2.10.1+galaxy2 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
_anonymous_output_1 | _anonymous_output_1 | n/a |
|
Version History
2 (earliest) Created 22nd Apr 2024 at 11:02 by Helena Rasche
Added/updated 3 files
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master
4e104d4
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Created: 22nd Apr 2024 at 11:02
Last updated: 22nd Apr 2024 at 11:02
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