The support.bioconductor.org editor has been updated to markdown! Please see more info at: Tutorial: Updated Support Site Editor

User: Jiang, Mike

gravatar for Jiang, Mike
Jiang, Mike1.2k
Reputation:
1,190
Status:
Trusted
Location:
(Private Address)
Last seen:
2 weeks, 1 day ago
Joined:
7 years, 4 months ago
Email:
w******@fhcrc.org

Posts by Jiang, Mike

<prev • 258 results • page 1 of 26 • next >
0
votes
1
answer
48
views
1
answers
Comment: C: How to select left hand side of mindensity2 gate
... flowCore&flowWorkspace provide the relative low-level of APIs to interact with the basic data structures (e.g. flowSet, Gatingset). For the auto gating, openCyto package provides more high-level interlaces and convenient wrappers (which are built upon those two packages). They operate at the di ...
written 15 days ago by Jiang, Mike1.2k
0
votes
1
answer
48
views
1
answers
Answer: A: How to select left hand side of mindensity2 gate
... I'd recommend openCyto gating functions to be used with its template-based gating framework. Instead of iterating through each sample (i.e. fsApply) of each gated population (i.e. getData) and invoking mindensity and adding gates manually, you can simply submit the gating strategy to the framework a ...
written 15 days ago by Jiang, Mike1.2k
0
votes
1
answer
149
views
1
answers
Comment: C: ncdfFlowSet with dim=3
... Glad to hear! Thanks for reporting the issue. ...
written 20 days ago by Jiang, Mike1.2k
1
vote
1
answer
149
views
1
answers
Answer: A: ncdfFlowSet with dim=3
... see the solution here https://github.com/RGLab/ncdfFlow/issues/44#issuecomment-459527469 ...
written 20 days ago by Jiang, Mike1.2k
0
votes
1
answer
133
views
1
answers
Answer: A: RefGate populations switched in OpenCyto 1.20
... I've pushed the fix. See details https://github.com/RGLab/openCyto/commit/f0c8104c32bf8242a8d4137dd4c5826e310b2492 You can either install the development version from github or wait for the updated release build 1.20.2 from BioC site(which typically takes 1 or 2 days to appear). ...
written 29 days ago by Jiang, Mike1.2k
0
votes
1
answer
71
views
1
answers
Answer: A: flowCore: retain raw data in the flowset after transformation
... You can do inline transformation,e.g. newFlowSet <- transform(flowset, `trans-FL2-A` = logicleT(`FL2-A`), `trans-FL3-A` = logicleT(`FL3-A`)) By the way, why do you need the original columns? ...
written 5 weeks ago by Jiang, Mike1.2k
0
votes
1
answer
133
views
1
answers
Comment: C: RefGate populations switched in OpenCyto 1.20
... I have tried to modify the population names to simulate your use case but it still works fine for me. I think you will have to provide a minimal reproducible example in order for me to troubleshoot it. ...
written 6 weeks ago by Jiang, Mike1.2k
0
votes
1
answer
133
views
1
answers
Comment: C: RefGate populations switched in OpenCyto 1.20
... refGate seems to work fine for me. See http://rpubs.com/wjiang2/453106 and try to run it to check if you can reproduce it. I can do some more testing(by mimic the same pop names as yours) If you can confirm your issue remains in your particular use case but can run my example without problems. ...
written 8 weeks ago by Jiang, Mike1.2k
0
votes
1
answer
84
views
1
answers
Answer: A: How to get popStats from wsp
... set 'execute = FALSE' to parseWorkspace call to parse xml into a GatingSet without loading FCS data, then call 'getPopStats' on the GatingSet. ...
written 9 weeks ago by Jiang, Mike1.2k
0
votes
1
answer
154
views
1
answers
Comment: C: FlowJo workspace cannot be parsed with flowworkspace
... see my response here https://support.bioconductor.org/p/101761/#113267, which may also explain your error ...
written 5 months ago by Jiang, Mike1.2k

Latest awards to Jiang, Mike

Scholar 5 months ago, created an answer that has been accepted. For A: openCyto displaying gating panels
Popular Question 6 months ago, created a question with more than 1,000 views. For how to read FCS3.1 files?
Scholar 20 months ago, created an answer that has been accepted. For A: trouble showing a polygon gate using geom_gate
Scholar 20 months ago, created an answer that has been accepted. For A: openCyto displaying gating panels
Scholar 20 months ago, created an answer that has been accepted. For A: OpenCyto -- time gate and border events
Popular Question 20 months ago, created a question with more than 1,000 views. For flowCore package - logicle transformation
Scholar 21 months ago, created an answer that has been accepted. For A: openCyto displaying gating panels
Popular Question 22 months ago, created a question with more than 1,000 views. For Help with flowCore
Scholar 2.8 years ago, created an answer that has been accepted. For A: OpenCyto -- time gate and border events
Scholar 2.8 years ago, created an answer that has been accepted. For A: openCyto displaying gating panels
Scholar 2.8 years ago, created an answer that has been accepted. For A: How to transform cytometry data from CSV and not FCS file?
Teacher 2.8 years ago, created an answer with at least 3 up-votes. For A: parsing flowFrame@description in flowCore
Scholar 2.8 years ago, created an answer that has been accepted. For A: openCyto trouble importing xml file
Scholar 2.8 years ago, created an answer that has been accepted. For A: How to FlowCore
Scholar 2.8 years ago, created an answer that has been accepted. For A: ggcyto's axis_inverse_trans: Usage with GatingSet constructed in R
Scholar 2.8 years ago, created an answer that has been accepted. For A: OpenCyto - getting gate coordinates
Scholar 2.8 years ago, created an answer that has been accepted. For A: How to edit parameters and description of fcs file
Scholar 2.8 years ago, created an answer that has been accepted. For A: parsing flowFrame@description in flowCore
Scholar 2.9 years ago, created an answer that has been accepted. For A: How to transform cytometry data from CSV and not FCS file?
Scholar 3.0 years ago, created an answer that has been accepted. For A: ggcyto's axis_inverse_trans: Usage with GatingSet constructed in R
Scholar 3.2 years ago, created an answer that has been accepted. For A: How to FlowCore
Scholar 3.3 years ago, created an answer that has been accepted. For A: timeLinePlot() ylab parameter doesn't work?
Centurion 3.3 years ago, created 100 posts.
Scholar 3.6 years ago, created an answer that has been accepted. For A: timeLinePlot() ylab parameter doesn't work?
Scholar 4.0 years ago, created an answer that has been accepted. For A: timeLinePlot() ylab parameter doesn't work?

Help
Access

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.
Powered by Biostar version 16.09
Traffic: 334 users visited in the last hour