theislab/destiny

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R package for single cell and other data analysis using diffusion maps

Stars: 113
Forks: 12
Open beginner issues: 0
Indexed issues: 31
Avg merge: 50m
Merged PRs (30d): 1

Dominant language: R
License: GPL-3.0
Last GitHub push: Jul 22, 2026
Latest indexed: Sep 20, 2026
Contributing guide: No contributing guide
Code of conduct: No code of conduct
Beginner labels: No beginner labels indexed

Beginner friendly Everything

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31 open issues indexed

Fix API docs Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

theislab/destiny#66 · 1 reaction · Opened Mar 3, 2024
Is it reasonable to use DiffusionMap with n_pcs = NA? Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#64 · 1 comment · Opened Nov 21, 2023
Segmentation fault with `DiffusionMap` Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

theislab/destiny#63 · 4 comments · Opened Mar 10, 2023
Version issue Matrix package (v1.5-1) Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

theislab/destiny#61 · 2 comments · Opened Oct 20, 2022
DiffusionMap: Error in duplicated.default(data) : duplicated() applies only to vectors Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#60 · Opened May 19, 2022
Mapping new individuals on an existing trajectory Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#53 · Opened Nov 17, 2021
Disabled branching? Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#52 · 1 comment · Opened Nov 2, 2021
How to decide these tips? Find the cells along a certain path? Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

theislab/destiny#50 · Opened Aug 30, 2021
gene_relevance questions 2 Open

Difficulty 3/5 1-2 days Newbie friendliness 20/100

theislab/destiny#46 · 2 comments · Opened Feb 18, 2021
Just Gaussian kernel, no knn Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#45 · Opened Feb 7, 2021
Bioc install failure on Mac OSX Catalina Open

Difficulty 4/5 3-5 days Newbie friendliness 35/100

theislab/destiny#44 · 5 comments · Opened Jan 28, 2021
Destiny build / Bioconductor Devel? Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#43 · 1 comment · 1 reaction · Opened Dec 10, 2020
applying destiny DiffusionMap() to bulk RNA sequencing data Open

Difficulty 4/5 3-5 days Newbie friendliness 20/100

theislab/destiny#42 · Opened Oct 26, 2020
Unable to install destiny Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#41 · Opened Sep 14, 2020
color code doesn't work for 3d diffusion map Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

theislab/destiny#40 · 1 comment · Opened Sep 10, 2020
Question: Can DC1 be well correlated to PC1? Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

theislab/destiny#39 · Opened Sep 10, 2020
Diffusion maps compared with scanpy Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#32 · 2 comments · Opened May 19, 2020
Is density normalization applied to the kernel? Open

question

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#25 · 5 comments · Opened Aug 15, 2019
Changed behavior in git vs v2.12 Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#24 · 2 comments · Opened Jul 12, 2019
Heatmap of genes along DPT pseudotime Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

theislab/destiny#23 · 1 comment · Opened Jul 2, 2019
why are eigenvalues in decreasing order? Open

question

Difficulty 4/5 3-5 days Newbie friendliness 35/100

theislab/destiny#19 · 1 comment · Opened May 28, 2019
Use better ANN library Open

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#18 · 5 comments · Opened May 27, 2019
DPT coordinates for projected data Open

enhancement

Difficulty 5/5 Over a week Newbie friendliness 25/100

theislab/destiny#16 · 2 comments · Opened Feb 4, 2019
Issue with coloring DPT plot Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

theislab/destiny#15 · 1 comment · Opened Jan 29, 2019
error when running DPT function Open

Difficulty 4/5 3-5 days Newbie friendliness 25/100

theislab/destiny#14 · 5 comments · Opened Jan 3, 2019
How do I identify genes that drive the branching process in diffusionmap? Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

theislab/destiny#13 · 3 comments · Opened Dec 18, 2018
Coloring DPT plot Open

Difficulty 3/5 1-2 days Newbie friendliness 25/100

theislab/destiny#11 · 1 comment · Opened Sep 11, 2018
The formula of censor_value Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

theislab/destiny#10 · 1 comment · Opened May 22, 2018
sigma="global" returns error Open

Difficulty 3/5 1-2 days Newbie friendliness 42/100

theislab/destiny#6 · 2 comments · Opened Feb 26, 2018
Implement SingleCellExperiment support Open

Difficulty 5/5 Over a week Newbie friendliness 20/100

theislab/destiny#3 · Opened Nov 28, 2017
Fix as.data.frame for deduplicated data Open

Difficulty 3/5 1-2 days Newbie friendliness 35/100

theislab/destiny#2 · Opened Nov 23, 2017

theislab/destiny

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