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reconstrue
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single_cell
Single cell analysis tools built to run on Jupyter, especially Colab
http://reconstrue.com
Apache License 2.0
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Spatial jutx Clustergrammer
#37
JohnTigue
opened
4 years ago
1
RNA velocity analsys
#36
JohnTigue
opened
4 years ago
0
React force directed graph of embeddings
#35
JohnTigue
opened
4 years ago
1
Clustergrammer for gene expression exploration
#34
JohnTigue
opened
4 years ago
3
Start with reads
#33
JohnTigue
opened
4 years ago
2
Rapids: tSVD
#32
JohnTigue
opened
4 years ago
1
Rapids: tSNE
#31
JohnTigue
opened
4 years ago
0
Rapids: random projections
#30
JohnTigue
opened
4 years ago
1
Rapids: DBSCAN
#29
JohnTigue
opened
4 years ago
0
HDBSCAN vs Allen cell type ground truth
#28
JohnTigue
opened
4 years ago
0
JavaScript tSNE and UMAP juxtaposed
#27
JohnTigue
opened
4 years ago
1
Clara Genomics
#26
JohnTigue
opened
4 years ago
0
Rapids: UMAP
#25
JohnTigue
opened
4 years ago
0
Dataset: The Allen's 76,307 murine cells.
#24
JohnTigue
closed
4 years ago
0
Dataset: 1.3m cells from 10x
#23
JohnTigue
opened
4 years ago
0
Scanpy issues
#22
JohnTigue
opened
4 years ago
0
Clustering issues
#21
JohnTigue
opened
4 years ago
0
SOMs
#20
JohnTigue
opened
4 years ago
0
Docs: Rapids
#19
JohnTigue
opened
4 years ago
0
PCA issues
#18
JohnTigue
opened
4 years ago
1
Repro paper: "UMAP: physical & genetic interactions," Trapnell Lab's Dorrity 2019
#17
JohnTigue
opened
4 years ago
0
UMAP preprocessing
#16
JohnTigue
opened
4 years ago
0
UMAP issues
#15
JohnTigue
opened
4 years ago
0
Repro paper: DR Accuracy, Robustness and Scalability (Sun 2019)
#14
JohnTigue
opened
4 years ago
0
VAE => UMAP
#13
JohnTigue
opened
4 years ago
0
McInnes et alia: UMAP and HDBSCAN
#12
JohnTigue
opened
4 years ago
3
Experiment to find max load processable in 12 hours
#11
JohnTigue
opened
4 years ago
0
tSNE: autopreplexity
#10
JohnTigue
opened
4 years ago
0
tSNE issues
#9
JohnTigue
opened
4 years ago
0
Patcher Lab: kallisto and bustools
#8
JohnTigue
opened
4 years ago
1
Python notebooks calling into Monocle R code
#7
JohnTigue
opened
4 years ago
0
Get Monocle3 full working
#6
JohnTigue
opened
4 years ago
1
Google Sheets as raw data viewer
#5
JohnTigue
opened
4 years ago
2
Repro paper: The Art of t-SNE for sc (Kobak 2018)
#4
JohnTigue
opened
4 years ago
0
Documentation
#3
JohnTigue
opened
4 years ago
6
Subset input dataset by gene expression, then DR plot the subset only
#2
JohnTigue
opened
4 years ago
0
tSNE on Colab => DR => tSNE in browser
#1
JohnTigue
opened
4 years ago
2
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