brianhie scanorama issues

brianhie / scanorama

Panoramic stitching of single cell data

http://scanorama.csail.mit.edu

MIT License

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issues

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batch correction in label transfer

#163 Li-ZhiD opened 1 month ago
0
Issue

#162 sdhbiusdgb opened 2 months ago
0
alignment scores outpout

#160 prubbens opened 3 months ago
1
Data sets must be numpy array or scipy.sparse.csr_matrix, received type <class 'anndata._core.views.SparseCSCView'>.

#159 zczali4403 opened 5 months ago
1
The tutorial address has changed

#158 zczali4403 closed 5 months ago
1
Memory not mapped

#157 AmosFong1 opened 6 months ago
0
Broken tutorial link

#156 Xiaohan0416 opened 7 months ago
0
Error when taking the union of genes

#155 brianhie opened 7 months ago
0
Kernel dies with 500GB memory

#153 kotr98 opened 8 months ago
2
update csr_matrix namespace

#152 KaiWaldrant closed 12 months ago
1
Order of Samples leads to different expression data after Scanorama normalization

#149 jeffpkamp opened 1 year ago
1
"negative dimensions are not allowed" when integrating large dataset

#147 aterceros opened 1 year ago
1
Running Scanorama in parallel with Reticulate

#146 weshorton opened 1 year ago
0
Can we use it on several daatsets for which we're not sure about the normalization

#145 Sophon-0 opened 1 year ago
0
module 'scanorama' has no attribute

#144 ChiaraCaprioli closed 1 year ago
0
Can scanorama.correct() be used on raw data for batch correction

#142 tbrunetti closed 1 year ago
1
scanorama with reticulate - ERROR: Data sets must be numpy array or scipy.sparse.csr_matrix, received type <class 'str'>.

#141 lucygarner opened 1 year ago
2
scanorama from this repo vs scanpy external

#140 mortunco opened 1 year ago
0
Data sets must be numpy array or scipy.sparse.csr_matrix, received type <class 'scipy.sparse._csc.csc_matrix'>.

#139 Jiayi-Zheng closed 1 year ago
1
confusion about the calculation about KNN

#138 yuxiaokang-source opened 1 year ago
0
Fix overly broad conversion of warnings to errors

#137 Wainberg closed 1 year ago
1
Much larger element cout in output matrix

#126 rvernica closed 2 years ago
0
Can I guide the alignment to be performed by scanorama?

#122 antonioggsousa closed 2 years ago
0
Restarting kernel...

#120 auesro closed 2 years ago
0
Scanpy's external API linkage is broken

#118 gangcai closed 2 years ago
1
expression distribution of genes in different clusters

#117 yihancc closed 2 years ago
0
Update intervaltree dependency and version number

#116 brianhie closed 2 years ago
0
Interval tree version bump?

#115 ivirshup closed 2 years ago
2
log-normalized or raw gene expression counts as input to Scanorama

#112 antonioggsousa closed 2 years ago
1
cannot unpack non-iterable NoneType object

#111 brianpenghe closed 2 years ago
2
NameError: name 'exit' is not defined. when integrating

#110 brianpenghe closed 2 years ago
1
Cell cycle regress before run scanorama?

#108 Zifeng-L closed 2 years ago
1
IndexError('index (%d) out of range' % max_indx)

#106 yafeng closed 2 years ago
1
Extracting mutual nearest neighbors

#101 SNRNS closed 2 years ago
1
Problem importing Scanorama: dependency sklearn.externals.six

#100 auesro closed 2 years ago
4
The integrated showing error

#93 honghh2018 closed 3 years ago
1
np.concatenate is taking long time and using very high memory

#92 galib36 closed 3 years ago
3
scanorama loading in R

#88 gmoore5 closed 3 years ago
0
about batch correction in CTRL and STIM

#84 tanasa closed 3 years ago
2
Unable to get results

#83 Zhaohui-Ruan closed 3 years ago
2
about the data after integrarion

#82 dongzuoyk closed 3 years ago
3
Deprecation Warning Due to Numpy

#81 axelalmet closed 3 years ago
2
Integration of CITEseq data: Use Scanorama with ADT surface marker?

#80 jkniffka closed 3 years ago
7
About the output values?

#79 OnlyBelter closed 3 years ago
3
Reticulate

#78 connorhknight closed 3 years ago
2
Implement unit testing and keep .obs and .var in correct_scanpy()

#77 brianhie closed 3 years ago
1
BLAS/LAPACK routine 'DLASWP' gave error code -6

#76 MagpiePKU closed 3 years ago
1
Recover Gene/Feature Loadings from the computed PCA (SC) for downstream analysis?

#75 Mochikris closed 3 years ago
1
scanorama_batch

#74 scheln closed 3 years ago
0
Illegal instruction (core dumped) on HPC cluster

#73 syouligan closed 3 years ago
10