-
### Discussed in https://github.com/drieslab/Giotto/discussions/783
Originally posted by **jmodlis** October 25, 2023
Hello,
Thank you for all your great work on this package! We have been…
-
Hello,
I am currently working on a research project where we are looking to infer the spatial information for scRNA genes using MERFISH data. Currently, our MERFISH data is analysed using Giotto an…
-
When running Part 14 in the tutorial SeqFish+ Mouse Cortex Example for the new version of Giotto found here https://giottosuite.readthedocs.io/en/latest/subsections/datasets/seqFISH_cortex.html, I c…
-
#### Description
A check_graph function is needed in order to check the input adjacency matrices for the geodesic_distance.py; moreover tests to check the behaviour of this function are also …
Amg88 updated
4 years ago
-
Both [pybind11](https://pypi.org/project/pybind11/) and [cmake](https://pypi.org/project/cmake/) are on PyPi and conda. Can we not specify them as regular dependencies instead of manually installing i…
-
Hello,
I am interested in using Giotto to calculate spatial correlations on a reduced dimension representation (NMF) of my visium spatial transcriptomic data. Is it possible to calculate the spati…
-
As stated in the roadmap, currently, `guddhi` and `giotto-ph` are used for various purposes. We want to be able to allow the user to specify which backend to use, and also provide sane defaults if the…
-
Hello Giotto team,
Thanks so much again for making this tool. Sorry for posting another issue in such a short time frame. This tool is excellent and it's been very helpful in analyzing my NanoStri…
-
I have downloaded a PBMC 3x scRNA-seq dataset (10X platform) as a reference to run DWLS spatial deconvolution for 10X Visium dataset. The analysis requires a metasheet with cell annotations and class …
-
#### Description
scikit-learn has a [datasets module](https://scikit-learn.org/stable/modules/classes.html#module-sklearn.datasets) that provides handy utility functions to load and generate to…