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digitalcytometry
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ecotyper
EcoTyper is a machine learning framework for large-scale identification of cell states and cellular ecosystems from gene expression data.
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Ecotyper crash during Step 2 (cell state discovery) of tutorial 6
#47
biobug16
closed
1 year ago
1
scRNA Discovery step 8 state matching of `H` fails
#46
NoahHenrikKleinschmidt
closed
2 years ago
3
How to apply for a Token of CIBERSORTx for docker ?
#45
liuyu999
closed
2 years ago
0
How to apply for a Token of CIBERSORTx for docker ?
#44
liuyu999
closed
2 years ago
0
How to apply for a Token of CIBERSORTx for docker ?
#43
liuyu999
closed
2 years ago
0
How to apply for a Token of CIBERSORTx for docker ?
#42
liuyu999
closed
1 year ago
1
scRNA Discovery step2 aborts after `state_discovery_scRNA_distances`
#41
NoahHenrikKleinschmidt
closed
1 year ago
3
Question about normalized scaled matrix
#40
seigfried
closed
1 year ago
1
scRNA discovery step 1 - wilcoxon twosample produces NaN
#39
NoahHenrikKleinschmidt
closed
2 years ago
0
Tutorial 4 / scRNA Discovery / When to adjust Jaccard matrix p-value cutoff?
#38
semenko
closed
1 year ago
1
Adapt cophenetic coefficient (CC) threshold per cell type
#37
LeonHafner
closed
2 years ago
1
Failed to connect to cibersortx.stanford.edu:80: Connection timed out
#36
kaizen89
closed
1 year ago
2
Error in tutorial "cp: cannot stat '../EcoTyper/Carcinoma/Carcinoma_Fractions/Cell_States/recovery/bulk_lung_data/B.cells/9/state_abundances.txt': No such file or directory"
#35
kaizen89
closed
2 years ago
2
EcoTyper does not handle spaces in path names
#34
kaizen89
closed
1 year ago
3
Copy error with Tutorial 1
#33
LeonHafner
closed
2 years ago
3
Tutorial 6 error with CODEFACS results
#32
biobug16
closed
1 year ago
1
EcoTyper State Recovery ScRNAseq Error
#31
dkwon6
closed
1 year ago
1
problems in tutorial 1
#30
lzz-123
closed
1 year ago
1
Problem step 8
#29
ccruizm
closed
1 year ago
4
could the ecotyper apply to the microarray data directly?
#28
lzz-123
closed
1 year ago
1
bulk recovery questions
#27
zhangch365
closed
1 year ago
1
Tutorial 4 - Warning: Only 0 genes are available
#26
VerenaPass
closed
1 year ago
14
error in 'Tutorial 1'
#25
zhangch365
closed
1 year ago
1
Ecotyper crashes in R 4.2 stable
#24
semenko
closed
2 years ago
1
The differences of Tutorial 2 with Tutorial 5
#23
QianhuiXu
closed
1 year ago
1
Ecotyper discovery fails in Step 8 / Avg_silhouette$avg.width : $ operator is invalid for atomic vectors
#22
semenko
closed
2 years ago
4
issue with EcoTyper_discovery_scRNA.R "Error in fastCor(scaled_data) : invalid nSplit: 0“
#21
QianhuiXu
closed
2 years ago
3
recovery our custom discovery have a problem
#20
Eve12126
closed
1 year ago
3
Error in dirname(files): a character vector argument expected
#19
ronkesm
closed
2 years ago
1
Annotating input cell types; should I be specific or broad?
#18
semenko
closed
2 years ago
1
Question about rank value selection
#17
hahahah-single
closed
1 year ago
2
the stat_assignment table is not equal with state color in the heatmap and is not the most abundant state
#16
wanhui5867
closed
2 years ago
3
Highly variable genes / pre-filtering input to EcoTyper_discovery_scRNA.R ?
#15
semenko
closed
2 years ago
1
length of simple annotations differ
#14
Lianwei-Li
closed
2 years ago
10
cannot source function in R
#13
sailseem
closed
2 years ago
3
Warning: NMF output file '../EcoTyper/...../estim.RData' is missing! Skipping it...
#12
choiismath
closed
2 years ago
6
scRNA-seq cell type annotation in the input requirement
#11
cjhong
closed
2 years ago
1
Failed to get address info of cibersortx.stanford.edu: Resource temporarily unavailable
#10
martion12
closed
2 years ago
1
Can Ecotyper be extended to AML?
#9
Chengwei94
closed
2 years ago
1
Using ecotyper on large single-cell data sets
#8
hahahah-single
closed
2 years ago
4
the percentage of Single cells assinged to cell state is inaccurate?
#7
linka0725
closed
2 years ago
4
fix.by error in Ecotyper_recovery_bulk.txt
#6
dstueckm
closed
2 years ago
2
Possible bug report in EcoTyper_discovery_scRNA.R pipeline
#5
czlcaltech
closed
2 years ago
2
about Token of CIBERSORTx for docker images
#4
xflicsu
closed
2 years ago
9
Problems with step8 discover scRNA ecotypes
#3
Sudolin
closed
2 years ago
1
Ecotyper recovery "undefined columns" issue
#2
othmanalsawaf
closed
2 years ago
2
Could EcoTyper be applied to hepatocellular carcinoma?
#1
thestarocean
closed
2 years ago
1
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