GTN Proteogemics3 Novel Peptide Analysis
Visit source
Download RO-Crate
Run on GalaxyProteogenomics 3: Novel peptide analysis
Associated Tutorial
This workflows is part of the tutorial GTN Proteogemics3 Novel Peptide Analysis, available in the GTN
Thanks to...
Tutorial Author(s): Subina Mehta, Timothy J. Griffin, Pratik Jagtap, Ray Sajulga, James Johnson, Praveen Kumar
Inputs
| ID | Name | Description | Type |
|---|---|---|---|
| Edited_Mus_Musculus.GRCm38.86 | #main/Edited_Mus_Musculus.GRCm38.86 | n/a |
|
| PSM Report | #main/PSM Report | n/a |
|
| genomic mapping sqlite db | #main/genomic mapping sqlite db | n/a |
|
| mz_sqlite | #main/mz_sqlite | n/a |
|
| peptides for blast | #main/peptides for blast | n/a |
|
Steps
| ID | Name | Description |
|---|---|---|
| 5 | NCBI BLAST+ blastp | toolshed.g2.bx.psu.edu/repos/devteam/ncbi_blast_plus/ncbi_blastp_wrapper/0.3.3 |
| 6 | PSM_Novel_Peptides | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
| 7 | Novel_Peptides | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
| 8 | Peptide Genomic Coodinate | toolshed.g2.bx.psu.edu/repos/galaxyp/peptide_genomic_coordinate/peptide_genomic_coordinate/0.1.1 |
| 9 | PepPointer | toolshed.g2.bx.psu.edu/repos/galaxyp/pep_pointer/pep_pointer/0.1.3 |
| 10 | Final_Summary_Novel_Peptides | toolshed.g2.bx.psu.edu/repos/iuc/query_tabular/query_tabular/3.0.0 |
Outputs
| ID | Name | Description | Type |
|---|---|---|---|
| BLASTP_results | #main/BLASTP_results | n/a |
|
| Final_Summary_Novel_Peptides | #main/Final_Summary_Novel_Peptides | n/a |
|
| Novel_Peptides | #main/Novel_Peptides | n/a |
|
| PSM_Novel_Peptides | #main/PSM_Novel_Peptides | n/a |
|
| PepPointer on input dataset(s) | #main/PepPointer on input dataset(s) | n/a |
|
| Peptide Genomic Coodinate on input dataset(s) | #main/Peptide Genomic Coodinate on input dataset(s) | n/a |
|
Version History
6.0 (latest) Created 16th Jul 2024 at 14:07 by Helena Rasche
Added/updated 4 files
Open
mastera493a90
7.0 (earliest) Created 25th Jun 2024 at 11:14 by Helena Rasche
Added/updated 4 files
Frozen
7.062da396
Creators and Submitter
Views: 1452 Downloads: 520 Runs: 0
Created: 25th Jun 2024 at 11:14
Last updated: 25th Jun 2024 at 11:14
Tags AttributionsNone
Related items
https://orcid.org/0000-0001-9760-8992
Teams: Testing, Finn's test team, PNDB, LifeMonitorDev, iPC: individualizedPaediatricCure, test, Test Team, Australian BioCommons Dev, opscientia, V-pipe, UX study leave, DALiuGE workflows, Team1, UX study, My Fancy Team, Team UX Study11, My team, ux study team, UX study koehorst, Team Koehorst, UX Study (satra), Steve's UX Study Test Team, TestSaandra, KJ-workflow-test, NewTeam, team, UXStudy, A Team, UX study K, UXStudy99, Study team, Another new team, UX study2, Team 20220225, my new team, UX Study AU, Testing_proteomics, A test space (KKH), Pleiade, QSM4SENIOR, IGG-Bioinfo, Defragmentation training school, FWCC-D@HZDR, Submission Tutorial, Testing team, Galaxy Training Network, Exploring SEEK SOP functionality, MyTest, Tsinghua University BCI group, Test Team Number Nine, Eli's test team, EMBL Bioimage analysis service, Hu's Test, test 705c32e038d0, Workshop Mar 2025 Test Out, Genomics for Australian Plants, Testing RO-crate generation and submission, BSC Dev, LS Test Team, CSB, MyTestTeam
Web page: Not specified
Space: General
Public web page: https://galaxy.training
