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Euro-BioImaging
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BatchConvert
A nextflow based tool that wraps bfconvert and bioformats2raw to convert image data collections to OME-TIFF and OME-Zarr, respectively, in a parallelised manner.
MIT License
16
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2
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support csv with different types of delimiters
#31
bugraoezdemir
closed
7 months ago
0
improve handling of csv files
#30
bugraoezdemir
closed
7 months ago
0
Dev
#29
bugraoezdemir
closed
7 months ago
0
Availability on other operating systems (at least on osx)
#28
k-dominik
opened
7 months ago
1
Dev
#27
bugraoezdemir
closed
7 months ago
0
Dev
#26
bugraoezdemir
closed
7 months ago
0
Dev
#25
bugraoezdemir
closed
8 months ago
0
ValueError: conflicting sizes for dimension 'C' after converting one channel into ome.tiff image
#24
DorianKauffmann
opened
8 months ago
2
Dev
#23
bugraoezdemir
closed
9 months ago
0
Dev
#22
bugraoezdemir
closed
9 months ago
0
How to handle config files in multi-user env
#21
tischi
opened
9 months ago
0
Chunk dimension names
#20
tischi
opened
9 months ago
0
Default values are not shown...
#19
tischi
opened
9 months ago
0
Zlib compression
#18
tischi
opened
9 months ago
0
Not nested
#17
tischi
opened
9 months ago
0
Configuration file
#16
tischi
opened
9 months ago
0
User specific Nextflow workdir on HPC
#15
tischi
opened
9 months ago
0
No funny characters in file and folder names
#14
tischi
opened
9 months ago
0
Typos in instructions
#13
tischi
opened
9 months ago
0
Specify where to build the singularity container when using BatchConvert on HPC
#12
tatianawoller
opened
10 months ago
0
Nextflow command as a job in the cluster.
#11
bugraoezdemir
opened
10 months ago
0
backup
#10
bugraoezdemir
closed
10 months ago
0
fix error message
#9
bugraoezdemir
closed
11 months ago
0
fix misleading error message
#8
bugraoezdemir
closed
11 months ago
0
fix: hang while configuring
#7
bugraoezdemir
closed
11 months ago
0
readme updates
#6
bugraoezdemir
closed
11 months ago
0
Dev
#5
bugraoezdemir
closed
1 year ago
1
Add option to get configuration files
#4
bugraoezdemir
closed
1 year ago
0
support for filenames with spaces
#3
bugraoezdemir
closed
1 year ago
0
Update environment.yml
#2
bugraoezdemir
closed
1 year ago
0
Create LICENSE
#1
bugraoezdemir
closed
1 year ago
0