Create instrument.json generator for BARseq

[dbirman]

dogwood.json
MMConfig_Ti2E-xc2 (1).txt

See email for additional details on excitation/emission paths.

[dougollerenshaw]

Here is the text of the email that Xiaoyin shared on 12/12/25:

In text form:
Here are the filters (not all of them are used in our current configuration):
Dicrhoic
D1
FF421/491/567/659/776-Di01
DAPI/GFP/RFP/Cy5/Cy7
D2
ZT405/514/635rpc
DAPI/YFP/Rs Cy5
D3
FF421/491/572-Di01-25x36
DAPI/GFP/TxRed

emission
Dichroic
laser
E1
FF01-441/511/593/684/817
DAPI/GFP/Red/Cy5/Cy7
D1
405
E2
FF01-565/24
YFP
D2
520
E3
FF01-585/11
RFP
D1
546
E4
FF01-676/29
FarRed
D1
638
E5
FF01-775/140
RS Cy5
D2
638
E6
FF01-391/477/549/639/741-25
YFP/Rs Cy5
E7
69401m
DAPI/GFP/TxRed
E8
ZET532/640m
Alexa532/Cy5(wide)

There are no excitation and we don't currently use a camera splitter.

the micromanager configuration file and the microscope config file is attached.

For the images, in cycles geneseq01 and bcseq01, the channels are G/T/A/C/DAPI. In other geneseq or bcseq cycles, the channels are GTAC. In hyb cycles, the channels are GFP/G/TxRed/Cy5/DAPI/DIC.

Let me know if you need additional information.

[dbirman]

Blocked waiting for serial # info