Software

Fiber Orientation

Monash University
Ami Doshi (Aggregated by) Cameron Nowell (Aggregated by)
Viewed: [[ro.stat.viewed]] Cited: [[ro.stat.cited]] Accessed: [[ro.stat.accessed]]
ctx_ver=Z39.88-2004&rft_val_fmt=info%3Aofi%2Ffmt%3Akev%3Amtx%3Adc&rfr_id=info%3Asid%2FANDS&rft_id=info:doi10.26180/19671576.v1&rft.title=Fiber Orientation&rft.identifier=https://doi.org/10.26180/19671576.v1&rft.publisher=Monash University&rft.description=Fiji/ImageJ macro for analysis of actin fiber orientation in cells grown in microfluidic devices. Macro was developed by Cameron J Nowell of Monash University (cameron.nowell@monash.edu) in collaboration with  Ami Mehta (ami.mehta@monash.edu). Code will take Leica LIF files. Analysis will extract the phalloidin channel (assumed to be channel 3) and analyse the fiber orienaion using OrientationJ. All graphs and data tables will be saved out. Requirements - Standard install of Fiji  Assumptions   - Data is in Leica LIF format  - Data is 3 channel Z series  - Fibre stain (e.g. phalloidin) is in the 3rd channel&rft.creator=Ami Doshi&rft.creator=Cameron Nowell&rft.date=2022&rft_rights=CC-BY-4.0&rft_subject=ImageJ macro&rft_subject=FIJI macro&rft_subject=microfuidic devices&rft_subject=Fiber orientation&rft_subject=Neuroscience&rft.type=Computer Program&rft.language=English Access the software
Cite Saved to MyRDA Save to MyRDA

Licence & Rights:

Open Licence view details
CC-BY

CC-BY-4.0

Full description

Fiji/ImageJ macro for analysis of actin fiber orientation in cells grown in microfluidic devices. Macro was developed by Cameron J Nowell of Monash University (cameron.nowell@monash.edu) in collaboration with 

Ami Mehta (ami.mehta@monash.edu).


Code will take Leica LIF files. Analysis will extract the phalloidin channel (assumed to be channel 3) and analyse the fiber orienaion using OrientationJ. All graphs and data tables will be saved out.


Requirements - Standard install of Fiji 

Assumptions 

 - Data is in Leica LIF format

 - Data is 3 channel Z series

 - Fibre stain (e.g. phalloidin) is in the 3rd channel

Issued: 2022-04-28

Created: 2022-04-28

This dataset is part of a larger collection

Click to explore relationships graph
Help

Related People

Subjects
FIJI macro | Fiber orientation | ImageJ macro | Neuroscience | microfuidic devices |

User Contributed Tags    

Login to tag this record with meaningful keywords to make it easier to discover

Identifiers
Similar data you may be interested in: