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A single 'Workspace' contains one or more 'Projects'. It also can be saved and restored. Projects contained within a Workspace are opened automatically with the Workspace. This tutorial will take you through the steps necessary to understand how the Project and Workspace entities work together in Genome Workbench. Download Experiment File.
- Jul 23, 2020 The workbench is your station for all the projects that you are going to build. You are most efficient when you are disciplined and hence a workbench can help you organize your tools. You may work at your garage and shed with the full ultimate comfort you need. This article will provide you with a few workbench ideas.
- A workbench is a worker's niche. Having a comfortable workspace is the first step in creating a project. Workbenches vary in size and the material from which it is made based on the purpose. If you are a beginner or a DIYer, then a simple wooden plank or an MDF board would serve the purpose.
- Adjustable in 1 in. Increments from 28.3 in. To 42.1 in., the heavy-duty steel legs keep the workbench firmly situated so you can steadily perform maneuvers from a seated or standing position. It coordinates nicely with the Husky 1-Drawer 2-Door Base Cabinet and Husky 2-Door Base Cabinet to give your garage, workshop or basement a cohesive look.
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Overview
The Workspace is located in the upper-left-hand corner of the application. It is used to contain open data files and store analysis results during a geWorkbench session. When geWorkbench is launched, an empty Workspace folder is displayed.
The workspace as a whole, with all its projects and data nodes, can be saved and restored. However, only one workspace can be open at one time. Creating a new workspace or loading a saved workspace will overwrite the current workspace.
- To view the next level down in the hierarchy, click on the “+” icon to expand the branch.
- To collapse a branch, click on the “-” icon.
The Workspace may contain several heterologous datasets. These datasets can include input (source) data and derived data (results) associated with an experiment as well as image files. Source data can be loaded from the user’s local storage or from remote servers. Loading datasets into the geWorkbench Workspace does not change their physical storage locations.
Note - The top menu-bar items File and Edit also apply to items in the Workspace. They offer many of the same options shown below, except e.g. Microarray merging is only available from the top level File menu.
Workspace Menu Options
Right-clicking on the Workspace node gives a menu with the following options
Open Files
- Loading data from local files is covered in the chapter Local Data Files
- Retrieving data from remote sources (caArray) is covered in Remote Data Sources
Open PDB File from RCSB Protein Data Bank
If Open PDB File from RCSB Protein Data Bank Nch switch plus 6 5 0 4. is chosen, a dialog box appears.
Type in the name of a PDB structure entry and it will be retrieved from the RCSB Protein Data Bank and loaded into geWorkbench.
Workspace Data Node Menu Options
Right-clicking on a data node will produce a popup menu with the following options:
Save
Save the currently selected data node. This is implemented for at least the below data types. If saving of a particular type has not been implemented, the 'Save' option will be disabled (grayed-out).
- Microarray gene expression - data is saved using the geWorkbench '.exp' format, regardless of the original format. This allows saving e.g. a merged dataset, and/or any array and marker sets that may have been created.
- FASTA - saved in FASTA format (.fasta).
- PDB - saved in PDB format (.pdb).
- Network - saved using the Adjacency Matrix 'ADJ' format (.adj).
- t-test result - saved as comma separated value (.csv) file.
- Image - saved as PNG file (.png).
For each file type, a file browser with a filter for the target file type extension (e.g. .fasta) will be opened.
Export to tab-delim
This option will only appear for microarray gene expression datasets. It allows the microarray dataset to be exported in a spreadsheet format, as a tab-delimited text file. The first row contains array names and the first column contains the marker names.
This export format does not preserve array or marker sets that may have been defined in geWorkbench for the dataset. However, it can be used to save a copy of e.g. merged, filtered, and/or normalized data in a format easily used by other programs.
When exporting, the file save dialog will display the name of the dataset, minus any recognized file-type suffixes that may be present (e.g. .soft).
Rename
A dialog box will appear in which a new name can be entered.
Remove
The selected data nodes and any child data nodes will be removed. Multiple selections can be made.
Data Node Hover-text Information
For microarray datasets, adjacency matrices (network nodes), sequence and pattern nodes, moving the mouse cursor over the data nodes will display additional details about a dataset.
Microarray datasets: hover text displays number of markers and arrays.
Adjacency Matrix: hover text displays number of nodes and edges in the network.
Sequence node:
Workspaces 1 5 – Organize Your Workbench Chest
Pattern node:
Workspaces
Saving the Workspace
Saving the workspace saves all its data to a file on disk. The workspace can later be reloaded to resume work.
Special considerations on saving and restoring workspaces
- Versions - Workspaces in general may not be compatible across different versions of geWorkbench.
- Loaded components - The configuration in the CCM of which components are loaded and which are not is not saved when the workspace is saved; it is maintained separately.
- Changes to loaded components - If a workspace is saved, and then changes are made to which components are loaded in the CCM, then in rare cases problems may occur when one attempts to reload the saved workspace.
Opening a Saved Workspace
File->Open-Workspace.
Only one workspace at a time can be loaded in geWorkbench. Opening a saved workspace will destroy the existing workspace. For this reason, if you opt to open a workspace, you will be prompted as to whether to save the existing workspace first.
A dialog box will appear in which the location and file name to which to save the workspace can be chosen.
Creating a New Workspace
Only one workspace at a time can be loaded in geWorkbench. Creating a new workspace will destroy the existing workspace. For this reason, if you opt to create a new workspace, you will be prompted as to whether to save the existing workspace first.
A new workspace can only be created from the top level menu bar.
Select File->New->Workspace.
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The workbench is your station for all the projects that youare going to build. You are most efficient when you are disciplined and hence aworkbench can help you organize your tools. You may work at your garage andshed with the full ultimate comfort you need.
This article will provide you with a few workbench ideas.Now you are the one who will pick so it is necessary to evaluate your status asa handyman, are you on a beginner level or are you a pro, choose accordingly.Additionally, do measure the space very carefully, and cut your wood accordingto your space
Here are 27 ideas that will help you take off with yourworkbench.
1. The Simple Classic One
This one comes with no more than the necessary features. Awall hanged working space maybe a few shelves on the wall for keeping the mercenaries.
2. Workbench With Shelves
Now this one is particularly useful if you are setting the workbench in the middle of the garage or shed, then it is beneficial for keeping the tools organized by shelves. Now, this design is for an easy build as can be observed from the picture, costs less, great for a garage.
3. Shelves With Modular Aluminum Speed Rail Connectors
One could build some amazing adjustableshelves with these aluminum precision parts. These are sturdy parts and the setupis quite configurable. These are easy to assemble and disassemble. The workplan for this workbench and shelves can be done within your weekend.
4. The Mobile Workbench
Yes, it is exactly as it sounds, this is a workbench thatcan move like a bar trolley. Now this one could come in handy for the handyman.For having the tools at hand’s length and have a workstation so you can have acustomized project that fit your room or space.
5. Simple Two-Level Workbench
This work plan might only take 45 dollars off your budget. Somechic plywood with two lumbers according to your measurement. Now this providesample space, even more, ease and comfort come when you know it is mobile. Thisone is great if you are a painter.
6. Tools on Wall
The most important aspect of building a suitable garage door would be to get a work platform that is high enough for you to work comfortably. In addition to that, you need a perfectly horizontal space. Shelves might add an extra budget Even cheaper option would be to get a few hooks on the wall instead of shelves,
7. Workbench With Drawers
The best way to organize the little kinds of stuff isdrawers. The screwdrivers, small handsaw, all could be laid out in thisbeautiful designer drawer. It is also great for safekeeping and keeping thingsorganized.
8. Convertible Miter Saw
If you need an efficient utilization of your space this isthe one to go to. As this can be folded back into itself or is completely convertible.Just open up and extend the table surface according to your project’s needs.
9. Folding Workbench
Now, this workbench is compact and very neat. Using some clamps and hooks you can even hang some stuff around and reduce the clutter. There is a drawer in this plan and guess what, even a shelf. On top of that the folding table4.
10. MoveableOne
Now this one you get to drag around wherever you want. Thebase is as with most workbench, measure up, cut the woods. Then align them andput on the casters. The 3-inch heavy-duty casters are great for making a mobileworkbench.
11. TheLarge Spacious Workbench
Now this one will be enormous and sufficient enough forevery tool. The workspace is spacious, the storage is of high capacity andthere is enough space for all the clamps and hooks.
12. The Heavy-Duty Cheap Workbench
This one will get the work done, itdoes not matter what work, this can hold just about any project. And all thiscomes with a very small cost.
13. A Top Folding Workbench
A workbench with a folding surface provides a spacious workspace. At the same time, it saves space when you are not working. This workbench with a shelf is and drawers can be smart woodwork and at the same time a sturdy workspace.
14. The Novice Carpenter’s DIY Workbench
This is the simplest routine of the DIY workbench plans. Asheet of plywood with four cut out length attached to it. The workbench couldnot get simpler than this. This is budget-friendly. A downside would be the nostorage option.
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15. The Space Friendly Workbench
This is the appropriate workbench idea for a place with a shortage of od space. It will provide a foldable working table along with a roll-out saw stand, drawer and shelve for the heavy stuff.
If you wander how to make a garage workbench, follow the link.
16. TheTraditional Workbench
The traditional is the simplest one. The working table ontop of four legs. There is no storage no clamps just the simple workbench inthe shortest possible budget.
Workspaces 1 5 – Organize Your Workbench Storage
17. Two by Four Workbench
It is a small workbench with not enough storage options butenough space to work on this workbench. But if you are someone who is not afrequent project manager of your crafts, you can surely afford this with thelowest possible budget.
18. Child-Sized Workbench
Maybe you have a young helper at your home. Wouldn’t it be agreat way to inspire your children by making them if they are personalized? This one has a child-friendly height alongwith precautions regarding how a child-friendly workbench should be.
19. The Tool Separator
The way this workbench is assembled will provide ampleopportunity for the project worker to store everything in an organized manner. Withseparate boxes incorporated into this table, it is really easy to sort yoursmall tools out according to their and purpose separately with this workbench.
Conclusion
The workbench idea should be selected based on your own individual needs. Measuring your significant space is of utmost important. After thoroughly going through these ideas one could simply just make the workbench of their passion.