Data analysis

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Creating ome.tiffs from .mcd via Jupyter Notebook

Last post by votti « Tue Jan 07, 2020 3:52 pm
Replies: 1
by MalteLehmann » Fri Dec 20, 2019 4:33 pm

1 Replies

120 Views

Last post by votti
Tue Jan 07, 2020 3:52 pm
Problems with generating ome.tiffs with python script

Last post by MalteLehmann « Fri Dec 20, 2019 1:43 pm

by MalteLehmann » Fri Dec 20, 2019 1:43 pm

0 Replies

66 Views

Last post by MalteLehmann
Fri Dec 20, 2019 1:43 pm
question about the neighborhood analysis heatmap

Last post by DenisSchapiro « Tue Dec 17, 2019 8:27 pm
Replies: 1
by dalide » Thu Dec 05, 2019 5:50 pm

1 Replies

452 Views

Last post by DenisSchapiro
Tue Dec 17, 2019 8:27 pm
HistoCAT 1.76 from github repo not installing on Mac - Matlab Runtime issue?

Last post by DenisSchapiro « Mon Dec 16, 2019 5:06 pm
Replies: 1
by tdmckee » Wed Dec 11, 2019 8:49 pm

1 Replies

244 Views

Last post by DenisSchapiro
Mon Dec 16, 2019 5:06 pm
Loading a new HistoCAT Session with previous Phenographs/gates?

Last post by DenisSchapiro « Wed Nov 06, 2019 9:49 pm
Replies: 1
by julianolea » Wed Oct 16, 2019 7:03 pm

1 Replies

929 Views

Last post by DenisSchapiro
Wed Nov 06, 2019 9:49 pm
HistoCAT reading mask as a channel, not a mask

Last post by DenisSchapiro « Mon Oct 07, 2019 10:28 pm
Replies: 1
by Channels » Thu Oct 03, 2019 3:46 am

1 Replies

476 Views

Last post by DenisSchapiro
Mon Oct 07, 2019 10:28 pm
IMC data transformation and normalisation across ROI

Last post by votti « Sat Sep 07, 2019 8:15 am
Replies: 2
by acoenen » Fri Aug 23, 2019 10:09 am

2 Replies

811 Views

Last post by votti
Sat Sep 07, 2019 8:15 am
Preprocessing and normalization in histoCAT

Last post by jonas « Tue Aug 27, 2019 8:58 am
Replies: 5
by erikg » Wed Mar 14, 2018 3:48 pm

5 Replies

2710 Views

Last post by jonas
Tue Aug 27, 2019 8:58 am
CellProfiler error

Last post by monirathhav « Sat Aug 24, 2019 4:45 am

by monirathhav » Sat Aug 24, 2019 4:45 am

0 Replies

1060 Views

Last post by monirathhav
Sat Aug 24, 2019 4:45 am
Export cell coordinates in histocat++

Last post by Seb « Thu Aug 08, 2019 9:04 pm
Replies: 2
by Seb » Wed Aug 07, 2019 4:02 pm

2 Replies

861 Views

Last post by Seb
Thu Aug 08, 2019 9:04 pm
Merge ROIs from IMC

Last post by Seb « Fri Aug 02, 2019 7:52 pm
Replies: 2
by Seb » Thu Aug 01, 2019 6:53 pm

2 Replies

728 Views

Last post by Seb
Fri Aug 02, 2019 7:52 pm
Cell population frequencies in HistoCat

Last post by DenisSchapiro « Fri Aug 02, 2019 6:33 pm
Replies: 12
by mattbliss90 » Tue Jul 24, 2018 6:12 pm
1

2
12 Replies

5235 Views

Last post by DenisSchapiro
Fri Aug 02, 2019 6:33 pm
HistoCAT++ crashing when trying to filter

Last post by RaulCatena « Fri Aug 02, 2019 7:56 am
Replies: 1
by Channels » Thu Jun 27, 2019 1:46 am

1 Replies

546 Views

Last post by RaulCatena
Fri Aug 02, 2019 7:56 am
Histocat - Differential cell neighborhood analysis

Last post by DenisSchapiro « Wed Jul 31, 2019 7:38 pm
Replies: 3
by sbooth » Tue Apr 23, 2019 11:36 pm

3 Replies

5216 Views

Last post by DenisSchapiro
Wed Jul 31, 2019 7:38 pm
any preprocessing before doing the analysis?

Last post by dalide « Tue Jun 04, 2019 8:52 pm

by dalide » Tue Jun 04, 2019 8:52 pm

0 Replies

1499 Views

Last post by dalide
Tue Jun 04, 2019 8:52 pm
Custom masks

Last post by chipboy « Wed Apr 17, 2019 2:46 pm

by chipboy » Wed Apr 17, 2019 2:46 pm

0 Replies

1460 Views

Last post by chipboy
Wed Apr 17, 2019 2:46 pm
histoCAT on Mac - tiny display fonts

Last post by DenisSchapiro « Mon Mar 11, 2019 7:58 pm
Replies: 1
by stoh » Tue Feb 05, 2019 8:35 pm

1 Replies

1267 Views

Last post by DenisSchapiro
Mon Mar 11, 2019 7:58 pm
Histocat neighborhood analysis

Last post by sleungy « Wed Jan 09, 2019 1:32 am
Replies: 2
by sleungy » Mon Dec 31, 2018 5:00 am

2 Replies

1565 Views

Last post by sleungy
Wed Jan 09, 2019 1:32 am
Reproducibility PhenoGraph algorithm in histoCAT

Last post by DenisSchapiro « Tue Jan 08, 2019 7:52 pm
Replies: 3
by ElisaRasca » Wed Oct 31, 2018 2:32 pm

3 Replies

2385 Views

Last post by DenisSchapiro
Tue Jan 08, 2019 7:52 pm
Shannon Entropy to quantify cell heterogeneity?

Last post by sbooth « Tue Dec 11, 2018 5:30 pm
Replies: 2
by sbooth » Tue Dec 11, 2018 5:11 pm

2 Replies

1407 Views

Last post by sbooth
Tue Dec 11, 2018 5:30 pm
Please report ALL histoCAT issues in Github

Last post by DenisSchapiro « Tue Nov 20, 2018 12:17 am

by DenisSchapiro » Tue Nov 20, 2018 12:17 am

0 Replies

2455 Views

Last post by DenisSchapiro
Tue Nov 20, 2018 12:17 am
Compensation slide acquisition

Last post by sbooth « Thu Nov 15, 2018 11:03 pm
Replies: 3
by sbooth » Mon Nov 12, 2018 6:27 pm

3 Replies

2135 Views

Last post by sbooth
Thu Nov 15, 2018 11:03 pm
Rphenograph

Last post by ElisaRasca « Fri Nov 02, 2018 5:50 pm
Replies: 2
by ElisaRasca » Wed Oct 31, 2018 3:22 pm

2 Replies

1565 Views

Last post by ElisaRasca
Fri Nov 02, 2018 5:50 pm
Bug with HistoCAT

Last post by monirathhav « Wed Oct 31, 2018 8:39 pm
Replies: 7
by monirathhav » Mon Oct 15, 2018 11:06 pm

7 Replies

3135 Views

Last post by monirathhav
Wed Oct 31, 2018 8:39 pm
Help with neighborhood analysis

Last post by DenisSchapiro « Tue Oct 30, 2018 8:29 pm
Replies: 8
by mattbliss90 » Fri Jul 06, 2018 6:52 pm

8 Replies

3374 Views

Last post by DenisSchapiro
Tue Oct 30, 2018 8:29 pm

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