Workflow Type: Galaxy
Open
Assembly
Associated Tutorial
This workflows is part of the tutorial Chloroplast-genome-assembly-and-annotation, available in the GTN
Thanks to...
Tutorial Author(s): Anna Syme
Inputs
ID | Name | Description | Type |
---|---|---|---|
Illumina_reads | #main/Illumina_reads | n/a |
|
Nanopore_reads | #main/Nanopore_reads | n/a |
|
Tiny_set_illumina_read | #main/Tiny_set_illumina_read | n/a |
|
Tiny_set_nanopore_reads | #main/Tiny_set_nanopore_reads | n/a |
|
Steps
ID | Name | Description |
---|---|---|
4 | Flye assembly | toolshed.g2.bx.psu.edu/repos/bgruening/flye/flye/2.6 |
5 | NanoPlot | toolshed.g2.bx.psu.edu/repos/iuc/nanoplot/nanoplot/1.28.2+galaxy1 |
6 | Map with BWA-MEM | toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.17.1 |
7 | Fasta Statistics | toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0 |
8 | Bandage Info | toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_info/0.8.1+galaxy1 |
9 | Bandage Image | toolshed.g2.bx.psu.edu/repos/iuc/bandage/bandage_image/0.8.1+galaxy2 |
10 | pilon | toolshed.g2.bx.psu.edu/repos/iuc/pilon/pilon/1.20.1 |
11 | Fasta Statistics | toolshed.g2.bx.psu.edu/repos/iuc/fasta_stats/fasta-stats/2.0 |
12 | Map with BWA-MEM | toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.17.1 |
13 | Map with BWA-MEM | toolshed.g2.bx.psu.edu/repos/devteam/bwa/bwa_mem/0.7.17.1 |
14 | Prokka | toolshed.g2.bx.psu.edu/repos/crs4/prokka/prokka/1.14.5 |
15 | JBrowse | toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.9+galaxy0 |
16 | JBrowse | toolshed.g2.bx.psu.edu/repos/iuc/jbrowse/jbrowse/1.16.9+galaxy0 |
Outputs
ID | Name | Description | Type |
---|---|---|---|
_anonymous_output_1 | #main/_anonymous_output_1 | n/a |
|
_anonymous_output_10 | #main/_anonymous_output_10 | n/a |
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_anonymous_output_11 | #main/_anonymous_output_11 | n/a |
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_anonymous_output_12 | #main/_anonymous_output_12 | n/a |
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_anonymous_output_13 | #main/_anonymous_output_13 | n/a |
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_anonymous_output_14 | #main/_anonymous_output_14 | n/a |
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_anonymous_output_15 | #main/_anonymous_output_15 | n/a |
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_anonymous_output_16 | #main/_anonymous_output_16 | n/a |
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_anonymous_output_17 | #main/_anonymous_output_17 | n/a |
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_anonymous_output_18 | #main/_anonymous_output_18 | n/a |
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_anonymous_output_19 | #main/_anonymous_output_19 | n/a |
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_anonymous_output_2 | #main/_anonymous_output_2 | n/a |
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_anonymous_output_20 | #main/_anonymous_output_20 | n/a |
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_anonymous_output_21 | #main/_anonymous_output_21 | n/a |
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_anonymous_output_22 | #main/_anonymous_output_22 | n/a |
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_anonymous_output_23 | #main/_anonymous_output_23 | n/a |
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_anonymous_output_24 | #main/_anonymous_output_24 | n/a |
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_anonymous_output_25 | #main/_anonymous_output_25 | n/a |
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_anonymous_output_26 | #main/_anonymous_output_26 | n/a |
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_anonymous_output_27 | #main/_anonymous_output_27 | n/a |
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_anonymous_output_28 | #main/_anonymous_output_28 | n/a |
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_anonymous_output_29 | #main/_anonymous_output_29 | n/a |
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_anonymous_output_3 | #main/_anonymous_output_3 | n/a |
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_anonymous_output_30 | #main/_anonymous_output_30 | n/a |
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_anonymous_output_31 | #main/_anonymous_output_31 | n/a |
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_anonymous_output_32 | #main/_anonymous_output_32 | n/a |
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_anonymous_output_33 | #main/_anonymous_output_33 | n/a |
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_anonymous_output_4 | #main/_anonymous_output_4 | n/a |
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_anonymous_output_5 | #main/_anonymous_output_5 | n/a |
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_anonymous_output_6 | #main/_anonymous_output_6 | n/a |
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_anonymous_output_7 | #main/_anonymous_output_7 | n/a |
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_anonymous_output_8 | #main/_anonymous_output_8 | n/a |
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_anonymous_output_9 | #main/_anonymous_output_9 | n/a |
|
Version History
3.0 (earliest) Created 25th Jun 2024 at 11:02 by Helena Rasche
Added/updated 4 files
Open
master
0c61558
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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Activity
Views: 147 Downloads: 57
Created: 25th Jun 2024 at 11:02
Last updated: 25th Jun 2024 at 11:02
![help](/assets/famfamfam_silk/information-8cfe563be76fb11b27c8ba778f5d40ce6800b244d6ca58ef6e9973308efbe534.png)
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