diff --git a/README.md b/README.md
index 20bbb0b..0c4daac 100644
--- a/README.md
+++ b/README.md
@@ -24,11 +24,11 @@ specifically for multiplex imaging data.
 
 General view: 
 ![plot](figs/main_figure.png)
-image made with image2go
+
 
 ## Table of Contents
 - [Clone the Repository](#clone-the-repository)
-- [Requirements](#requirements)
+- [Requirements/Installation](#requirements)
 - [Getting started](#getting-started)
 - [Credits](#credits)
 - [License](#license)
@@ -46,19 +46,33 @@ git clone https://github.com/your_username/your_repository.git
 
 ## Create conda environment
 
-Download the package and create environment or check requirements
+You can create the environment installing the packages or using the ymal file. 
+
+To manually create and install packages use: 
+
+```bash
+conda create --name penguin
+conda activate penguin
+conda install matplotlib pandas panel numpy opencv scikit-image ipywidgets jupyter ipykernel plotly
+pip install apeer-ometiff-library --no-deps
+```
 
-if trouble with appeear-ome ti... and imagecodecs install no deps 
+Alternatively, you can create the environemtn using the yml file:
+
+```bash
+conda env create --file penguin_env.yml
+conda activate penguin
+pip install apeer-ometiff-library --no-deps
+```
 
 After you created the environment, and if you want to use the Jupyter notebooks
 
-activate penguin environment and add the environment kernel to jupyter 
+add the environment kernel to jupyter 
 ~~~~~~~~~~~~~
 ~~~~~~~~~~~~~
 ```bash
 python -m ipykernel install --user --name=penguin
 ```
-
 launch the jupyter and be sure that you are running with the penguin kernel
 
 ## Getting started
diff --git a/penguin_env.yml b/penguin_env.yml
new file mode 100644
index 0000000..e2151c0
--- /dev/null
+++ b/penguin_env.yml
@@ -0,0 +1,373 @@
+name: penguin
+channels:
+  - conda-forge
+  - defaults
+dependencies:
+  - _libgcc_mutex=0.1=conda_forge
+  - _openmp_mutex=4.5=2_gnu
+  - alsa-lib=1.2.11=hd590300_1
+  - anyio=4.3.0=pyhd8ed1ab_0
+  - aom=3.9.0=hac33072_0
+  - argon2-cffi=23.1.0=pyhd8ed1ab_0
+  - argon2-cffi-bindings=21.2.0=py312h98912ed_4
+  - arrow=1.3.0=pyhd8ed1ab_0
+  - asttokens=2.4.1=pyhd8ed1ab_0
+  - async-lru=2.0.4=pyhd8ed1ab_0
+  - attr=2.5.1=h166bdaf_1
+  - attrs=23.2.0=pyh71513ae_0
+  - babel=2.14.0=pyhd8ed1ab_0
+  - beautifulsoup4=4.12.3=pyha770c72_0
+  - bleach=6.1.0=pyhd8ed1ab_0
+  - blosc=1.21.5=hc2324a3_1
+  - bokeh=3.4.1=pyhd8ed1ab_0
+  - brotli=1.1.0=hd590300_1
+  - brotli-bin=1.1.0=hd590300_1
+  - brotli-python=1.1.0=py312h30efb56_1
+  - brunsli=0.1=h9c3ff4c_0
+  - bzip2=1.0.8=hd590300_5
+  - c-ares=1.28.1=hd590300_0
+  - c-blosc2=2.14.4=hb4ffafa_1
+  - ca-certificates=2024.2.2=hbcca054_0
+  - cached-property=1.5.2=hd8ed1ab_1
+  - cached_property=1.5.2=pyha770c72_1
+  - cairo=1.18.0=h3faef2a_0
+  - certifi=2024.2.2=pyhd8ed1ab_0
+  - cffi=1.16.0=py312hf06ca03_0
+  - charls=2.4.2=h59595ed_0
+  - charset-normalizer=3.3.2=pyhd8ed1ab_0
+  - colorama=0.4.6=pyhd8ed1ab_0
+  - comm=0.2.2=pyhd8ed1ab_0
+  - contourpy=1.2.1=py312h8572e83_0
+  - cycler=0.12.1=pyhd8ed1ab_0
+  - dav1d=1.2.1=hd590300_0
+  - dbus=1.13.6=h5008d03_3
+  - debugpy=1.8.1=py312h30efb56_0
+  - decorator=5.1.1=pyhd8ed1ab_0
+  - defusedxml=0.7.1=pyhd8ed1ab_0
+  - double-conversion=3.3.0=h59595ed_0
+  - entrypoints=0.4=pyhd8ed1ab_0
+  - exceptiongroup=1.2.0=pyhd8ed1ab_2
+  - executing=2.0.1=pyhd8ed1ab_0
+  - expat=2.6.2=h59595ed_0
+  - ffmpeg=6.1.1=gpl_h1a7fc40_111
+  - font-ttf-dejavu-sans-mono=2.37=hab24e00_0
+  - font-ttf-inconsolata=3.000=h77eed37_0
+  - font-ttf-source-code-pro=2.038=h77eed37_0
+  - font-ttf-ubuntu=0.83=h77eed37_2
+  - fontconfig=2.14.2=h14ed4e7_0
+  - fonts-conda-ecosystem=1=0
+  - fonts-conda-forge=1=0
+  - fonttools=4.51.0=py312h98912ed_0
+  - fqdn=1.5.1=pyhd8ed1ab_0
+  - freeglut=3.2.2=hac7e632_2
+  - freetype=2.12.1=h267a509_2
+  - fribidi=1.0.10=h36c2ea0_0
+  - gettext=0.22.5=h59595ed_2
+  - gettext-tools=0.22.5=h59595ed_2
+  - giflib=5.2.2=hd590300_0
+  - glib=2.80.2=hf974151_0
+  - glib-tools=2.80.2=hb6ce0ca_0
+  - gmp=6.3.0=h59595ed_1
+  - gnutls=3.7.9=hb077bed_0
+  - graphite2=1.3.13=h59595ed_1003
+  - gst-plugins-base=1.22.9=hfa15dee_1
+  - gstreamer=1.22.9=h98fc4e7_1
+  - h11=0.14.0=pyhd8ed1ab_0
+  - h2=4.1.0=pyhd8ed1ab_0
+  - harfbuzz=8.5.0=hfac3d4d_0
+  - hdf5=1.14.3=nompi_h4f84152_101
+  - hpack=4.0.0=pyh9f0ad1d_0
+  - httpcore=1.0.5=pyhd8ed1ab_0
+  - httpx=0.27.0=pyhd8ed1ab_0
+  - hyperframe=6.0.1=pyhd8ed1ab_0
+  - icu=73.2=h59595ed_0
+  - idna=3.7=pyhd8ed1ab_0
+  - imagecodecs=2024.1.1=py312hb7b22c5_6
+  - imageio=2.34.1=pyh4b66e23_0
+  - imath=3.1.11=hfc55251_0
+  - importlib-metadata=7.1.0=pyha770c72_0
+  - importlib_metadata=7.1.0=hd8ed1ab_0
+  - importlib_resources=6.4.0=pyhd8ed1ab_0
+  - ipykernel=6.29.3=pyhd33586a_0
+  - ipython=8.24.0=pyh707e725_0
+  - ipywidgets=8.1.2=pyhd8ed1ab_1
+  - isoduration=20.11.0=pyhd8ed1ab_0
+  - jasper=4.2.4=h536e39c_0
+  - jedi=0.19.1=pyhd8ed1ab_0
+  - jinja2=3.1.4=pyhd8ed1ab_0
+  - json5=0.9.25=pyhd8ed1ab_0
+  - jsonpointer=2.4=py312h7900ff3_3
+  - jsonschema=4.22.0=pyhd8ed1ab_0
+  - jsonschema-specifications=2023.12.1=pyhd8ed1ab_0
+  - jsonschema-with-format-nongpl=4.22.0=pyhd8ed1ab_0
+  - jupyter=1.0.0=pyhd8ed1ab_10
+  - jupyter-lsp=2.2.5=pyhd8ed1ab_0
+  - jupyter_client=8.6.1=pyhd8ed1ab_0
+  - jupyter_console=6.6.3=pyhd8ed1ab_0
+  - jupyter_core=5.7.2=py312h7900ff3_0
+  - jupyter_events=0.10.0=pyhd8ed1ab_0
+  - jupyter_server=2.14.0=pyhd8ed1ab_0
+  - jupyter_server_terminals=0.5.3=pyhd8ed1ab_0
+  - jupyterlab=4.2.0=pyhd8ed1ab_1
+  - jupyterlab_pygments=0.3.0=pyhd8ed1ab_1
+  - jupyterlab_server=2.27.1=pyhd8ed1ab_0
+  - jupyterlab_widgets=3.0.10=pyhd8ed1ab_0
+  - jxrlib=1.1=hd590300_3
+  - keyutils=1.6.1=h166bdaf_0
+  - kiwisolver=1.4.5=py312h8572e83_1
+  - krb5=1.21.2=h659d440_0
+  - lame=3.100=h166bdaf_1003
+  - lazy_loader=0.4=pyhd8ed1ab_0
+  - lcms2=2.16=hb7c19ff_0
+  - ld_impl_linux-64=2.40=h55db66e_0
+  - lerc=4.0.0=h27087fc_0
+  - libabseil=20240116.2=cxx17_h59595ed_0
+  - libaec=1.1.3=h59595ed_0
+  - libasprintf=0.22.5=h661eb56_2
+  - libasprintf-devel=0.22.5=h661eb56_2
+  - libass=0.17.1=h8fe9dca_1
+  - libavif16=1.0.4=hfa3d5b6_3
+  - libblas=3.9.0=22_linux64_openblas
+  - libbrotlicommon=1.1.0=hd590300_1
+  - libbrotlidec=1.1.0=hd590300_1
+  - libbrotlienc=1.1.0=hd590300_1
+  - libcap=2.69=h0f662aa_0
+  - libcblas=3.9.0=22_linux64_openblas
+  - libclang-cpp15=15.0.7=default_h127d8a8_5
+  - libclang-cpp18.1=18.1.5=default_h127d8a8_0
+  - libclang13=18.1.5=default_h5d6823c_0
+  - libcups=2.3.3=h4637d8d_4
+  - libcurl=8.7.1=hca28451_0
+  - libdeflate=1.20=hd590300_0
+  - libdrm=2.4.120=hd590300_0
+  - libedit=3.1.20191231=he28a2e2_2
+  - libev=4.33=hd590300_2
+  - libevent=2.1.12=hf998b51_1
+  - libexpat=2.6.2=h59595ed_0
+  - libffi=3.4.2=h7f98852_5
+  - libflac=1.4.3=h59595ed_0
+  - libgcc-ng=13.2.0=h77fa898_7
+  - libgcrypt=1.10.3=hd590300_0
+  - libgettextpo=0.22.5=h59595ed_2
+  - libgettextpo-devel=0.22.5=h59595ed_2
+  - libgfortran-ng=13.2.0=h69a702a_7
+  - libgfortran5=13.2.0=hca663fb_7
+  - libglib=2.80.2=hf974151_0
+  - libglu=9.0.0=hac7e632_1003
+  - libgomp=13.2.0=h77fa898_7
+  - libgpg-error=1.49=h4f305b6_0
+  - libhwloc=2.10.0=default_h5622ce7_1001
+  - libhwy=1.1.0=h00ab1b0_0
+  - libiconv=1.17=hd590300_2
+  - libidn2=2.3.7=hd590300_0
+  - libjpeg-turbo=3.0.0=hd590300_1
+  - libjxl=0.10.2=hcae5a98_0
+  - liblapack=3.9.0=22_linux64_openblas
+  - liblapacke=3.9.0=22_linux64_openblas
+  - libllvm15=15.0.7=hb3ce162_4
+  - libllvm18=18.1.5=hb77312f_0
+  - libnghttp2=1.58.0=h47da74e_1
+  - libnsl=2.0.1=hd590300_0
+  - libogg=1.3.4=h7f98852_1
+  - libopenblas=0.3.27=pthreads_h413a1c8_0
+  - libopencv=4.9.0=qt6_py312h400c3b0_614
+  - libopenvino=2024.1.0=h2da1b83_7
+  - libopenvino-auto-batch-plugin=2024.1.0=hb045406_7
+  - libopenvino-auto-plugin=2024.1.0=hb045406_7
+  - libopenvino-hetero-plugin=2024.1.0=h5c03a75_7
+  - libopenvino-intel-cpu-plugin=2024.1.0=h2da1b83_7
+  - libopenvino-intel-gpu-plugin=2024.1.0=h2da1b83_7
+  - libopenvino-intel-npu-plugin=2024.1.0=he02047a_7
+  - libopenvino-ir-frontend=2024.1.0=h5c03a75_7
+  - libopenvino-onnx-frontend=2024.1.0=h07e8aee_7
+  - libopenvino-paddle-frontend=2024.1.0=h07e8aee_7
+  - libopenvino-pytorch-frontend=2024.1.0=he02047a_7
+  - libopenvino-tensorflow-frontend=2024.1.0=h39126c6_7
+  - libopenvino-tensorflow-lite-frontend=2024.1.0=he02047a_7
+  - libopus=1.3.1=h7f98852_1
+  - libpciaccess=0.18=hd590300_0
+  - libpng=1.6.43=h2797004_0
+  - libpq=16.3=ha72fbe1_0
+  - libprotobuf=4.25.3=h08a7969_0
+  - libsndfile=1.2.2=hc60ed4a_1
+  - libsodium=1.0.18=h36c2ea0_1
+  - libsqlite=3.45.3=h2797004_0
+  - libssh2=1.11.0=h0841786_0
+  - libstdcxx-ng=13.2.0=hc0a3c3a_7
+  - libsystemd0=255=h3516f8a_1
+  - libtasn1=4.19.0=h166bdaf_0
+  - libtiff=4.6.0=h1dd3fc0_3
+  - libunistring=0.9.10=h7f98852_0
+  - libuuid=2.38.1=h0b41bf4_0
+  - libva=2.21.0=hd590300_0
+  - libvorbis=1.3.7=h9c3ff4c_0
+  - libvpx=1.14.0=h59595ed_0
+  - libwebp-base=1.4.0=hd590300_0
+  - libxcb=1.15=h0b41bf4_0
+  - libxcrypt=4.4.36=hd590300_1
+  - libxkbcommon=1.7.0=h662e7e4_0
+  - libxml2=2.12.7=hc051c1a_0
+  - libzlib=1.2.13=hd590300_5
+  - libzopfli=1.0.3=h9c3ff4c_0
+  - linkify-it-py=2.0.3=pyhd8ed1ab_0
+  - lz4-c=1.9.4=hcb278e6_0
+  - markdown=3.6=pyhd8ed1ab_0
+  - markdown-it-py=3.0.0=pyhd8ed1ab_0
+  - markupsafe=2.1.5=py312h98912ed_0
+  - matplotlib=3.8.4=py312h7900ff3_2
+  - matplotlib-base=3.8.4=py312h20ab3a6_2
+  - matplotlib-inline=0.1.7=pyhd8ed1ab_0
+  - mdit-py-plugins=0.4.1=pyhd8ed1ab_0
+  - mdurl=0.1.2=pyhd8ed1ab_0
+  - mistune=3.0.2=pyhd8ed1ab_0
+  - mpg123=1.32.6=h59595ed_0
+  - munkres=1.1.4=pyh9f0ad1d_0
+  - mysql-common=8.3.0=hf1915f5_4
+  - mysql-libs=8.3.0=hca2cd23_4
+  - nbclient=0.10.0=pyhd8ed1ab_0
+  - nbconvert=7.16.4=hd8ed1ab_0
+  - nbconvert-core=7.16.4=pyhd8ed1ab_0
+  - nbconvert-pandoc=7.16.4=hd8ed1ab_0
+  - nbformat=5.10.4=pyhd8ed1ab_0
+  - ncurses=6.5=h59595ed_0
+  - nest-asyncio=1.6.0=pyhd8ed1ab_0
+  - nettle=3.9.1=h7ab15ed_0
+  - networkx=3.3=pyhd8ed1ab_1
+  - notebook=7.2.0=pyhd8ed1ab_0
+  - notebook-shim=0.2.4=pyhd8ed1ab_0
+  - nspr=4.35=h27087fc_0
+  - nss=3.100=hca3bf56_0
+  - numpy=1.26.4=py312heda63a1_0
+  - ocl-icd=2.3.2=hd590300_1
+  - opencv=4.9.0=qt6_py312hac6a15e_614
+  - openexr=3.2.2=haf962dd_1
+  - openh264=2.4.1=h59595ed_0
+  - openjpeg=2.5.2=h488ebb8_0
+  - openssl=3.3.0=hd590300_0
+  - overrides=7.7.0=pyhd8ed1ab_0
+  - p11-kit=0.24.1=hc5aa10d_0
+  - packaging=24.0=pyhd8ed1ab_0
+  - pandas=2.2.2=py312h1d6d2e6_1
+  - pandoc=3.2=ha770c72_0
+  - pandocfilters=1.5.0=pyhd8ed1ab_0
+  - panel=1.4.2=pyhd8ed1ab_0
+  - param=2.1.0=pyhca7485f_0
+  - parso=0.8.4=pyhd8ed1ab_0
+  - pcre2=10.43=hcad00b1_0
+  - pexpect=4.9.0=pyhd8ed1ab_0
+  - pickleshare=0.7.5=py_1003
+  - pillow=10.3.0=py312hdcec9eb_0
+  - pip=24.0=pyhd8ed1ab_0
+  - pixman=0.43.2=h59595ed_0
+  - pkgutil-resolve-name=1.3.10=pyhd8ed1ab_1
+  - platformdirs=4.2.2=pyhd8ed1ab_0
+  - plotly=5.22.0=pyhd8ed1ab_0
+  - ply=3.11=pyhd8ed1ab_2
+  - prometheus_client=0.20.0=pyhd8ed1ab_0
+  - prompt-toolkit=3.0.42=pyha770c72_0
+  - prompt_toolkit=3.0.42=hd8ed1ab_0
+  - psutil=5.9.8=py312h98912ed_0
+  - pthread-stubs=0.4=h36c2ea0_1001
+  - ptyprocess=0.7.0=pyhd3deb0d_0
+  - pugixml=1.14=h59595ed_0
+  - pulseaudio-client=17.0=hb77b528_0
+  - pure_eval=0.2.2=pyhd8ed1ab_0
+  - py-opencv=4.9.0=qt6_py312hb24711e_614
+  - pycparser=2.22=pyhd8ed1ab_0
+  - pygments=2.18.0=pyhd8ed1ab_0
+  - pyparsing=3.1.2=pyhd8ed1ab_0
+  - pyqt=5.15.9=py312h949fe66_5
+  - pyqt5-sip=12.12.2=py312h30efb56_5
+  - pysocks=1.7.1=pyha2e5f31_6
+  - python=3.12.3=hab00c5b_0_cpython
+  - python-dateutil=2.9.0=pyhd8ed1ab_0
+  - python-fastjsonschema=2.19.1=pyhd8ed1ab_0
+  - python-json-logger=2.0.7=pyhd8ed1ab_0
+  - python-tzdata=2024.1=pyhd8ed1ab_0
+  - python_abi=3.12=4_cp312
+  - pytz=2024.1=pyhd8ed1ab_0
+  - pyviz_comms=3.0.2=pyhd8ed1ab_1
+  - pywavelets=1.4.1=py312hc7c0aa3_1
+  - pyyaml=6.0.1=py312h98912ed_1
+  - pyzmq=26.0.3=py312h8fd38d8_0
+  - qt-main=5.15.8=h112747c_20
+  - qt6-main=6.6.3=hd0aab4e_0
+  - qtconsole-base=5.5.2=pyha770c72_0
+  - qtpy=2.4.1=pyhd8ed1ab_0
+  - rav1e=0.6.6=he8a937b_2
+  - readline=8.2=h8228510_1
+  - referencing=0.35.1=pyhd8ed1ab_0
+  - requests=2.31.0=pyhd8ed1ab_0
+  - rfc3339-validator=0.1.4=pyhd8ed1ab_0
+  - rfc3986-validator=0.1.1=pyh9f0ad1d_0
+  - rpds-py=0.18.1=py312h4413252_0
+  - scikit-image=0.22.0=py312hfb8ada1_2
+  - scipy=1.13.0=py312hc2bc53b_1
+  - send2trash=1.8.3=pyh0d859eb_0
+  - setuptools=69.5.1=pyhd8ed1ab_0
+  - sip=6.7.12=py312h30efb56_0
+  - six=1.16.0=pyh6c4a22f_0
+  - snappy=1.2.0=hdb0a2a9_1
+  - sniffio=1.3.1=pyhd8ed1ab_0
+  - soupsieve=2.5=pyhd8ed1ab_1
+  - stack_data=0.6.2=pyhd8ed1ab_0
+  - svt-av1=2.0.0=h59595ed_0
+  - tbb=2021.12.0=h297d8ca_1
+  - tenacity=8.3.0=pyhd8ed1ab_0
+  - terminado=0.18.1=pyh0d859eb_0
+  - tifffile=2024.5.10=pyhd8ed1ab_0
+  - tinycss2=1.3.0=pyhd8ed1ab_0
+  - tk=8.6.13=noxft_h4845f30_101
+  - toml=0.10.2=pyhd8ed1ab_0
+  - tomli=2.0.1=pyhd8ed1ab_0
+  - tornado=6.4=py312h98912ed_0
+  - tqdm=4.66.4=pyhd8ed1ab_0
+  - traitlets=5.14.3=pyhd8ed1ab_0
+  - types-python-dateutil=2.9.0.20240316=pyhd8ed1ab_0
+  - typing-extensions=4.11.0=hd8ed1ab_0
+  - typing_extensions=4.11.0=pyha770c72_0
+  - typing_utils=0.1.0=pyhd8ed1ab_0
+  - tzdata=2024a=h0c530f3_0
+  - uc-micro-py=1.0.3=pyhd8ed1ab_0
+  - uri-template=1.3.0=pyhd8ed1ab_0
+  - urllib3=2.2.1=pyhd8ed1ab_0
+  - wcwidth=0.2.13=pyhd8ed1ab_0
+  - webcolors=1.13=pyhd8ed1ab_0
+  - webencodings=0.5.1=pyhd8ed1ab_2
+  - websocket-client=1.8.0=pyhd8ed1ab_0
+  - wheel=0.43.0=pyhd8ed1ab_1
+  - widgetsnbextension=4.0.10=pyhd8ed1ab_0
+  - x264=1!164.3095=h166bdaf_2
+  - x265=3.5=h924138e_3
+  - xcb-util=0.4.0=hd590300_1
+  - xcb-util-cursor=0.1.4=hd590300_1
+  - xcb-util-image=0.4.0=h8ee46fc_1
+  - xcb-util-keysyms=0.4.0=h8ee46fc_1
+  - xcb-util-renderutil=0.3.9=hd590300_1
+  - xcb-util-wm=0.4.1=h8ee46fc_1
+  - xkeyboard-config=2.41=hd590300_0
+  - xorg-fixesproto=5.0=h7f98852_1002
+  - xorg-inputproto=2.3.2=h7f98852_1002
+  - xorg-kbproto=1.0.7=h7f98852_1002
+  - xorg-libice=1.1.1=hd590300_0
+  - xorg-libsm=1.2.4=h7391055_0
+  - xorg-libx11=1.8.9=h8ee46fc_0
+  - xorg-libxau=1.0.11=hd590300_0
+  - xorg-libxdmcp=1.1.3=h7f98852_0
+  - xorg-libxext=1.3.4=h0b41bf4_2
+  - xorg-libxfixes=5.0.3=h7f98852_1004
+  - xorg-libxi=1.7.10=h7f98852_0
+  - xorg-libxrender=0.9.11=hd590300_0
+  - xorg-renderproto=0.11.1=h7f98852_1002
+  - xorg-xextproto=7.3.0=h0b41bf4_1003
+  - xorg-xf86vidmodeproto=2.3.1=h7f98852_1002
+  - xorg-xproto=7.0.31=h7f98852_1007
+  - xyzservices=2024.4.0=pyhd8ed1ab_0
+  - xz=5.2.6=h166bdaf_0
+  - yaml=0.2.5=h7f98852_2
+  - zeromq=4.3.5=h75354e8_4
+  - zfp=1.0.1=h59595ed_0
+  - zipp=3.17.0=pyhd8ed1ab_0
+  - zlib=1.2.13=hd590300_5
+  - zlib-ng=2.0.7=h0b41bf4_0
+  - zstd=1.5.6=ha6fb4c9_0