ncem
scanpy

ncem | scanpy | |
---|---|---|
1 | 5 | |
104 | 1,990 | |
0.0% | 1.5% | |
6.2 | 9.3 | |
about 1 year ago | 10 days ago | |
Python | Python | |
BSD 3-clause "New" or "Revised" License | BSD 3-clause "New" or "Revised" License |
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ncem
scanpy
- Renaming Genes for Scanpy Plot
- Useful Python Decorators for Data Scientists
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[Scanpy] Installation issues related to pytables
Upon searching stack, I still do not understand the exact issue, as the file "hdf5extension.cp38-win_amd64" is present within C:\Users\username\anaconda3\lib\site-packages\tables\. Would anyone be able to explain the problem and any potential circumventions?
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standardize/normalize seq data
I would suggest you explore with SCANPY and verify if your batch labels generate a strong separation in your samples (PCA, tSNE, UMAP). If you then need to correct for batches, according to how simple/complex they are, you can choose a tool from this benchmark.
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Flipping one histogram below the axis.
I am plotting 2 1-D histograms on top of one another using a hold on command. Is there a way to have one histogram be upside down, and then to flip the entire plot 90˚? I am looking to create a violin plot https://github.com/theislab/scanpy/issues/1448 on my own, having one histogram on the left, and one on the right.
What are some alternatives?
gnn - TensorFlow GNN is a library to build Graph Neural Networks on the TensorFlow platform.
pagoda2 - R package for analyzing and interactively exploring large-scale single-cell RNA-seq datasets
NeuRec - Next RecSys Library
dash-cytoscape - Interactive network visualization in Python and Dash, powered by Cytoscape.js
PDN - The official PyTorch implementation of "Pathfinder Discovery Networks for Neural Message Passing" (WebConf '21)
getting-started-with-genomics-tools-and-resources - Unix, R and python tools for genomics and data science
karateclub - Karate Club: An API Oriented Open-source Python Framework for Unsupervised Learning on Graphs (CIKM 2020)
deepvariant - DeepVariant is an analysis pipeline that uses a deep neural network to call genetic variants from next-generation DNA sequencing data.
pytorch_geometric_temporal - PyTorch Geometric Temporal: Spatiotemporal Signal Processing with Neural Machine Learning Models (CIKM 2021)
reloadium - Hot Reloading and Profiling for Python
data-science-ipython-notebooks - Data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe, Keras), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.
PyDESeq2 - A Python implementation of the DESeq2 pipeline for bulk RNA-seq DEA.
