ltla/batchelor issues and pull requests

#51 - Other Methods Unclear

Issue - State: open - Opened by DarioS 2 months ago

#50 - Coercing blocks to sparseMatrix no longer needed during block processing with DelayedArray >= 0.31.5

Pull Request - State: closed - Opened by hpages 4 months ago

#49 - semi-supervised fastMNN correction

Issue - State: open - Opened by julien-roux 8 months ago - 3 comments

#48 - Would this also be applicable to bulk data?

Issue - State: open - Opened by Thapeachydude 9 months ago - 2 comments

#48 - Would this also be applicable to bulk data?

Issue - State: open - Opened by Thapeachydude 9 months ago - 2 comments

#47 - recuedMNN Error: C stack usage 7978148 is too close to the limit.

Issue - State: open - Opened by wanghao98 9 months ago - 7 comments

#47 - recuedMNN Error: C stack usage 7978148 is too close to the limit.

Issue - State: open - Opened by wanghao98 9 months ago - 7 comments

#46 - Unit test failure on Mac arm64

Issue - State: open - Opened by hpages 10 months ago - 1 comment

#46 - Unit test failure on Mac arm64

Issue - State: open - Opened by hpages 10 months ago - 1 comment

#45 - SummarizedExperiment::assay: on fastMNN object : object of type 'S4' is not subsettable

Issue - State: open - Opened by nebetbastet about 1 year ago - 4 comments

#44 - multiBatchPCA: Non-alphabetically sorted batch levels give error when used with list-style weights

Issue - State: closed - Opened by PeteHaitch over 1 year ago - 2 comments

#43 - multiBatchNorm: Error in .rescale_size_factors(stats$averages, stats$size.factors, min.mean = min.mean) : median ratio of averages between batches is not finite

Issue - State: open - Opened by Yunuuuu over 1 year ago - 3 comments

#42 - Reintegration of subset causing very large file size

Issue - State: open - Opened by maxc2020 almost 2 years ago - 5 comments

#42 - Reintegration of subset causing very large file size

Issue - State: open - Opened by maxc2020 almost 2 years ago - 5 comments

#41 - The gene names are NAs after running mnnCorrect

Issue - State: closed - Opened by LeeWang21 almost 2 years ago - 1 comment

#41 - The gene names are NAs after running mnnCorrect

Issue - State: closed - Opened by LeeWang21 almost 2 years ago - 1 comment

#40 - more singular values/vectors requested than available

Issue - State: open - Opened by sailseem almost 2 years ago - 1 comment

#40 - more singular values/vectors requested than available

Issue - State: open - Opened by sailseem almost 2 years ago - 1 comment

#39 - Error in RunFastMNN with Seurat wrapper

Issue - State: closed - Opened by parkjooyoung99 about 2 years ago - 2 comments

#39 - Error in RunFastMNN with Seurat wrapper

Issue - State: closed - Opened by parkjooyoung99 about 2 years ago - 2 comments

#38 - Using MNN corrected data for per cell pathway scoring

Issue - State: open - Opened by jiajinlongkang over 2 years ago - 1 comment

#38 - Using MNN corrected data for per cell pathway scoring

Issue - State: open - Opened by jiajinlongkang over 2 years ago - 1 comment

#37 - How to convert corrected data to positive values?

Issue - State: closed - Opened by RoseString over 2 years ago - 4 comments

#37 - How to convert corrected data to positive values?

Issue - State: closed - Opened by RoseString over 2 years ago - 4 comments

#36 - Correct more than two batches

Issue - State: open - Opened by parkjooyoung99 over 2 years ago - 5 comments

#36 - Correct more than two batches

Issue - State: open - Opened by parkjooyoung99 over 2 years ago - 5 comments

#35 - Unexpected number of cells produced in fastMNN

Issue - State: open - Opened by Hrovatin over 2 years ago - 3 comments

#35 - Unexpected number of cells produced in fastMNN

Issue - State: open - Opened by Hrovatin over 2 years ago - 3 comments

#34 - could not find function "quickCorrect"

Issue - State: open - Opened by zqsha almost 3 years ago - 2 comments

#33 - error in batchelor installation

Issue - State: open - Opened by wonliy almost 3 years ago - 1 comment

#32 - Unable to use correctExperiments with 'subset.row=' defined

Issue - State: closed - Opened by ycl6 about 3 years ago - 4 comments

#31 - Problem with mixed DelayedMatrix & dgCMatrix data type

Issue - State: open - Opened by ycl6 over 3 years ago - 2 comments

#31 - Problem with mixed DelayedMatrix & dgCMatrix data type

Issue - State: open - Opened by ycl6 over 3 years ago - 2 comments

#30 - Error integrating with fastMNN when specifying merge order

Issue - State: closed - Opened by dkeitley over 3 years ago - 2 comments

#30 - Error integrating with fastMNN when specifying merge order

Issue - State: closed - Opened by dkeitley over 3 years ago - 2 comments

#29 - Add a quickCorrect function

Issue - State: closed - Opened by LTLA over 3 years ago - 1 comment

#29 - Add a quickCorrect function

Issue - State: closed - Opened by LTLA over 3 years ago - 1 comment

#28 - Use the variance of MNN deltas as a correction diagnostic

Pull Request - State: closed - Opened by LTLA over 3 years ago

#28 - Use the variance of MNN deltas as a correction diagnostic

Pull Request - State: closed - Opened by LTLA over 3 years ago

#27 - Feature request: fastMNN on PCs

Issue - State: closed - Opened by dagarfield over 3 years ago - 2 comments

#27 - Feature request: fastMNN on PCs

Issue - State: closed - Opened by dagarfield over 3 years ago - 2 comments

#26 - Give the option to append results to single SCE inputs

Issue - State: open - Opened by LTLA over 3 years ago

#25 - Using MNN corrected data for diffusion map generation

Issue - State: open - Opened by shokohirosue over 3 years ago - 2 comments

#24 - pre-processing for MNN

Issue - State: closed - Opened by shokohirosue almost 4 years ago - 2 comments

#23 - Installation error for R 4.0.0. Redhat 7.4

Issue - State: open - Opened by as7a5 almost 4 years ago - 1 comment

#22 - Better error messages for checkBatchConsistency

Issue - State: closed - Opened by LTLA almost 4 years ago

#21 - correcting in multiple steps

Issue - State: closed - Opened by shokohirosue almost 4 years ago - 9 comments

#20 - confusion about the smooth_gaussian_kernel.cpp with mnnCorrect()

Issue - State: open - Opened by yuxiaokang-source about 4 years ago - 5 comments

#19 - correctExperiments with a single input should just append to that object.

Issue - State: closed - Opened by LTLA about 4 years ago

#19 - correctExperiments with a single input should just append to that object.

Issue - State: closed - Opened by LTLA about 4 years ago

#18 - Subsetting fastMNN integrated data

Issue - State: open - Opened by fxgaldos over 4 years ago - 2 comments

#18 - Subsetting fastMNN integrated data

Issue - State: open - Opened by fxgaldos over 4 years ago - 2 comments

#17 - batchelor Installation problem with scutlle

Issue - State: closed - Opened by gundalav over 4 years ago - 2 comments

#16 - Questions regarding multiBatchNorm and fastMNN based correction

Issue - State: closed - Opened by piyushjo15 over 4 years ago - 3 comments

#15 - Using multiple datasets for fastMNN

Issue - State: closed - Opened by piyushjo15 over 4 years ago - 7 comments

#14 - mnnCorrect.R

Issue - State: closed - Opened by getanid123 over 4 years ago - 5 comments

#13 - Cluster-based MNN

Pull Request - State: closed - Opened by LTLA almost 5 years ago - 2 comments

#12 - Choice of normalization strategy with multiple batches

Issue - State: closed - Opened by gdagstn almost 5 years ago - 4 comments

#11 - questions about fastMNN and mnnCorrect functions

Issue - State: closed - Opened by ahmedabbas81 almost 5 years ago - 4 comments

GitHub / ltla/batchelor issues and pull requests