xwghua / dcimg2tiff

This is a program to transform Hamamatsu dcimg files to multipage tif files.

dcimg2tiff.m

Introduction

Here I wrote a Matlab class file to directly read Hamamatsu dcimg files.

Requirements

• Matlab R2006+

Usage

• To get information from .dcimg file

dcim = dcimg(scrname);
dc_hdr = dcim.dc_file_header;
dc_sess_hdr = dcim.dc_sess_header; % The main file info is in this struct

scrname The filename of the dcimg file.
dcim The read dcimg structure including all the info of the file.

• To get portion/all of the content of the .dcimg file

dcim = dcimg(scrname,scrind);
im = dcim.data;

scrname The filename of the dcimg file.
scrind The indices of the portion slices you want to read. E.g., 1:10, [1,2,3,4], etc.
dcim The read dcimg structure including all the info of the file.
im The image data you read. This is in the 'data' field of the dcimg struct.

dcimg2tiff.py

Introduction

This package also includes a Python program to transform Hamamatsu dcimg files to multipage tif files.
[NOTE] To avoid large file errors, this program limits the total pixel number of the file within 2^31.

Requirements

• Python 3.5+
• numpy (pip install numpy)
• tifffile (pip install tifffile)
• dcimg (pip install dcimg)
• rich (pip install rich)

Usage

dcimg2tiff(scrname,destfolder)

scrname The filename of the dcimg file.
destfolder The destination folder to store tif files.

Acknowledgement

Please acknowledge Xuanwen Hua's contribution if this package is used in your work. For any further questions, please feel free to DM me on Github. Thank you!
- Mar. 24th, 2022 PLEASE NOTE THAT I DO NOT USE WECHAT OR ANY CHINESE SOCIAL MEDIA.