Skip to content

Issues: kharchenkolab/numbat

New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Clear current search query, filters, and sorts
64 Open 110 Closed
64 Open 110 Closed
Author
Filter by author
Loading
Label
Filter by label
Loading
Use alt + click/return to exclude labels
or ⇧ + click/return for logical OR
Projects
Filter by project
Loading
Milestones
Filter by milestone
Loading
Assignee
Filter by who’s assigned
Sort
Sort by
Newest Oldest Most commented Least commented Recently updated Least recently updated Best match
Most reactions
👍 👎 😄 🎉 😕 ❤️ 🚀 👀

Issues list

error when running numbat::preprocess_allele in pileup_and_phase.R
#123 by rosaranli was closed Jun 6, 2023 updated Jun 6, 2023
2
copynumber::pcf execution
#126 by wyt14 was closed May 29, 2023 updated May 29, 2023
1
Which CNV_state to use from the output?
#124 by aelhossiny was closed May 23, 2023 updated May 23, 2023
1
Does Numbat filter cells out during giving posterior probabilities on single-cell level?
#120 by aelhossiny was closed May 9, 2023 updated May 9, 2023
1
Z States output
#119 by aelhossiny was closed May 9, 2023 updated May 9, 2023
1
Fail when running with target subset of regions
#118 by kokonech was closed May 8, 2023 updated May 8, 2023
1
Understanding Numbat results
#117 by acalcino was closed May 3, 2023 updated May 3, 2023
2
Running Numbat on cells coming from multiple samples
#111 by aelhossiny was closed Apr 28, 2023 updated Apr 28, 2023
1
difference between subtrees and clones?
#115 by aelhossiny was closed Apr 28, 2023 updated Apr 28, 2023
2
Error in mutate(., state = run_joint_hmm(pAD = pAD, DP = DP, p_s = p_s,
#112 by pcream was closed Apr 20, 2023 updated Apr 20, 2023
7
Using numbat on multiple 10x visium spatial samples
#113 by spatialbiology1 was closed Apr 18, 2023 updated Apr 18, 2023
2
Error in using external annotation in plot_phylo_heatmap
#72 by wangsky137 was closed Apr 4, 2023 updated Apr 4, 2023
1
Error in optim(fn = function(w) {: non-finite value supplied by optim
#110 by ccruizm was closed Apr 4, 2023 updated Apr 4, 2023
4
Settings adjustment for single gene amplification
#102 by kokonech was closed Apr 2, 2023 updated Apr 2, 2023
1
Generate single-cell likelihoods for a pre-specified CNV enhancement New feature or request
#45 by tobyaicher was closed Apr 2, 2023 updated Apr 2, 2023
3
Run Numbat on selected chromosomes enhancement New feature or request
#108 by aranham was closed Apr 2, 2023 updated Apr 2, 2023
3
Error with "diploid_chroms"
#81 by Romeo1-1 was closed Apr 2, 2023 updated Apr 2, 2023
7
Where to find Eagle genetic_map_hg38_withX.txt.gz since the mirror is down?
#109 by EspressoKris was closed Mar 21, 2023 updated Mar 21, 2023
2
Error in h(simpleError(msg, call)) :
#73 by zqingyuan was closed Mar 8, 2023 updated Mar 8, 2023
1
Settings for Cellsnp
#105 by JikaiShao was closed Feb 27, 2023 updated Mar 7, 2023
2
Numbat is crashing with custom reference data
#62 by Laolga was closed Mar 6, 2023 updated Mar 6, 2023
3
Numbat error with custom reference
#97 by cv55 was closed Mar 6, 2023 updated Mar 6, 2023
1
docker tags
#107 by johnyaku was closed Feb 27, 2023 updated Feb 27, 2023
1
no CNVs after run_numbat() and large run time
#98 by sbamopoulos was closed Feb 14, 2023 updated Feb 14, 2023
3
Tibble columns issue
#92 by cbwang3 was closed Feb 14, 2023 updated Feb 14, 2023
5
ProTip! no:milestone will show everything without a milestone.