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atarashansky
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SAMap
SAMap: Mapping single-cell RNA sequencing datasets from evolutionarily distant organisms.
MIT License
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transfer_annotations - removed
#104
kullrich
closed
1 year ago
8
Converting files
#103
otoky
closed
1 year ago
2
"IndexError: boolean index did not match indexed array along dimension 0" in SAMAP call
#102
lb15
closed
1 year ago
6
Do noe know which reference should be choosen for doing blast
#101
houruiyan
closed
1 year ago
7
sankey_plot(MappingTable, align_thr=0.05, species_order = ['pl','sc','hy'])
#100
JoshuaNguyen123
closed
1 year ago
16
"Too many values to unpack" ENRICHMENT_SCORES,NUM_ENRICHED_GENES,ENRICHED_GENES = FE.calculate_enrichment(verbose=True)
#99
JoshuaNguyen123
closed
1 year ago
2
Problem with Gp,G1,G2 = gpf.find_genes(n1,n2)
#98
JoshuaNguyen123
closed
1 year ago
1
0 `mo` gene symbols match between the datasets and the BLAST graph.
#97
houruiyan
closed
1 year ago
4
empty
#96
atarashansky
closed
1 year ago
0
Error in running sm.run()
#95
FraMont1
closed
1 year ago
2
FileExistsError: BLAST mapping tables with the input IDs (mo and ra) not found in the specified path.
#94
houruiyan
closed
1 year ago
3
BaseException: Could not construct partition: vector::_M_default_append
#93
houruiyan
closed
1 year ago
2
Error in running map_genes.sh
#92
djlmt
closed
1 year ago
2
Installation issue in numpy import
#91
Hrovatin
closed
1 year ago
2
Is SAMap suitable for plant scRNA-seq?
#90
SCQUchenyang
closed
1 year ago
6
input formats?
#89
gulfshores
closed
2 years ago
3
samalg can't import.
#88
Ray569743422
closed
2 years ago
3
How to calculate the cell-type specific substitution score?
#87
huawen-poppy
closed
2 years ago
1
Feature Request: p-values for the gene:gene pairs in genepairfinder:find_all()
#86
philoel
closed
2 years ago
3
An error when use sm.run(pairwise=True)
#85
Smilenone
closed
2 years ago
2
Functional Enrichment with GO terms not easily working
#84
philoel
closed
2 years ago
13
Datatset with biological replicates
#83
joeyhuang401055
closed
2 years ago
4
Looking to use SAMap to analyze datasets from mouse and zebrafish single cell.
#82
otoky
closed
2 years ago
4
Where can I download fasta data of transcriptome/proteome for different species?
#81
Smilenone
closed
2 years ago
8
arrays used as indices must be of integer (or boolean) type
#80
silastittes
closed
2 years ago
1
Adding options for thread numbers
#79
mys721tx
closed
2 years ago
0
"KeyError: 'dict'" with reproducible example
#78
silastittes
closed
2 years ago
5
key bug in transfer annotation function
#77
chewc
closed
2 years ago
0
save_samap TypeError: can't pickle weakref objects
#76
jmmusser
closed
2 years ago
1
"Too many values to unpack" in sm.run()
#75
philoel
closed
2 years ago
15
Compute the EggNOG table
#74
YY-SONG0718
closed
2 years ago
2
Error when "transfer_annotations"
#73
rodrisenovilla
closed
2 years ago
2
KeyError: 'tissue' in sm.samap.adata
#72
wubaosheng
closed
2 years ago
0
after the 'sm.run(pairwise=True)', how to save the results of sm to our disk？
#71
wubaosheng
closed
2 years ago
2
ValueError: inconsistent shapes for sm.run(pairwise=True)
#70
wubaosheng
closed
2 years ago
1
Error when using a custom data set
#69
PeiwenJi
closed
2 years ago
4
Extracting knn averaged, standardized expression values from samap object
#68
ivanferrreira
closed
2 years ago
1
`SAMAP()` taking too long to run?
#67
archavan
closed
2 years ago
9
`KeyError: 'connectivities'` when running `SAMAP()`
#66
archavan
closed
2 years ago
6
Mapping eggnogs - code snippet
#65
ivanferrreira
closed
2 years ago
1
Usage of map_genes.sh
#64
PeiwenJi
closed
2 years ago
2
Jupyter Notebook launched from docker container crashes when importing SAMap
#63
JesseDGibson
closed
2 years ago
3
h5ad file
#62
RhettRautsaw
closed
2 years ago
0
Seurat Integrated dataset import SAMAP
#61
billadelonge
closed
2 years ago
2
export plots
#60
Bassi-git
closed
2 years ago
2
get 0 gene symbols match between the datasets and the BLAST graph
#59
huawen-poppy
closed
2 years ago
23
Issue running recent SAMap_vignette
#58
itliao
closed
3 years ago
1
Building wheel for numba
#57
billadelonge
closed
2 years ago
14
Understanding the block diagonal gene expression matrix
#56
jasminelmah
closed
3 years ago
3
Calculate Mapping Scores with leiden_clusters
#55
kmmika
closed
3 years ago
3
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