SCIMAP - Release-2.2.11

mcmicro workflow CLI

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson 11 months ago

SCIMAP - Release-2.1.3

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 1 year ago

SCIMAP - Release-2.1.0

Release post peer-review

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 1 year ago

SCIMAP - Release-2.0.0

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 1 year ago

SCIMAP - Release-1.3.3

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson about 2 years ago

SCIMAP - Release-1.0.0

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 2 years ago

SCIMAP - Release-0.22.0

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 3 years ago

SCIMAP - Release-0.19.0

• Included support for Apple M1 machines
• Included support for native rendering of Zarr stored images using Napari: pl.image_viewer and pl.gate_finder

Temporary workaround for installing in Apple M1 machines

```

reate and load a new environment

conda create --name scimap python=3.8 -y conda activate scimap

if you do not have xcode please install it

xcode-select --install

if you do not have homebrew please install it

/bin/bash -c "$(curl -fsSL https://raw.githubusercontent.com/Homebrew/install/HEAD/install.sh)"

if you do not have cmake install it

brew install cmake

install h5py

brew install hdf5@1.12 export HDF5DIR=/opt/homebrew/Cellar/hdf5/1.12.11/ pip install --no-binary=h5py h5py

install llvmlite

conda install llvmlite -y

install leidenalg

pip install git+https://github.com/vtraag/leidenalg.git

install scimap

pip install -U scimap

uninstall

conda remove llvmlite -y pip uninstall numba -y pip uninstall numpy -y

reinstall this specific version of llvmlite (ignore errors/warning)

pip install -i https://pypi.anaconda.org/numba/label/wheelsexperimentalm1/simple llvmlite

reinstall this specific version of numpy (ignore errors/warning)

pip install numpy==1.22.3

reinstall this specific version of numba (ignore errors/warning)

pip install -i https://pypi.anaconda.org/numba/label/wheelsexperimentalm1/simple numba ```

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 3 years ago

SCIMAP - Release-0.18.1

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson almost 4 years ago

SCIMAP - Release-0.17.7

Testing the new GitHub Action that automatically builds, tags and pushed Docker container images. The action is triggered by new releases.

Scientific Software - Peer-reviewed - Python
Published by ArtemSokolov over 4 years ago

SCIMAP - Release-0.17.6

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 4 years ago

SCIMAP - Release-0.17.5

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 4 years ago

SCIMAP - Release-0.17.4

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 4 years ago

SCIMAP - Integration with MCMICRO

Added CLI compatibility for a few functions and integrating with MCMICRO

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 4 years ago

SCIMAP - Phenotype cells

Includes functions from loading data to phenotyping the cells.

Scientific Software - Peer-reviewed - Python
Published by ajitjohnson over 5 years ago