Ecosyste.ms: Issues

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GitHub / ZJUFanLab/scCATCH issues and pull requests

#67 - install error

Issue - State: closed - Opened by q1134269149 8 months ago

#66 - Error when using custom marker dataframe

Issue - State: open - Opened by niccolovono 12 months ago - 1 comment

#65 - Cell type annotation for more than 3 subtypes

Issue - State: open - Opened by gkc251 over 1 year ago

#64 - CellMatch reference database version

Issue - State: open - Opened by februaryfang over 1 year ago

#63 - Error in apply(ndata2, 1, mean) : dim(X) must have a positive length

Issue - State: open - Opened by Namuhan33 over 1 year ago - 1 comment

#62 - Inconsistent logFC calculation method

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

#61 - no 'first' column in clu_ann

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

#60 - An error appeared when running findmarkergene()

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

#59 - error from rev_gene function

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

#58 - scCATCH and Seurat

Issue - State: closed - Opened by cathalgking almost 2 years ago - 8 comments

#57 - no method for coercing this S4 class to a vector

Issue - State: closed - Opened by Elena983 about 2 years ago - 2 comments

#56 - cluster cell match

Issue - State: closed - Opened by antoine4ucsd about 2 years ago - 2 comments

#55 - No matched potential marker genes in the matrix!

Issue - State: closed - Opened by Elena983 about 2 years ago - 9 comments

#54 - Issue: could not find function "scCATCH"

Issue - State: closed - Opened by RYY0722 about 2 years ago - 1 comment

#53 - Nasal epithelium: not matched with the tissue types in CellMatch database

Issue - State: closed - Opened by olgabaranov about 2 years ago - 1 comment

#52 - Can I work with seurat function FindAllMarkers

Issue - State: closed - Opened by yugacandy over 2 years ago - 1 comment

#51 - 更新版本后不能使用原来的Seurat格式的数据了吗

Issue - State: closed - Opened by cherryamme over 2 years ago - 1 comment

#50 - cluster_data format

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

#48 - Problem with functions findmarkergenes and scCATCH

Issue - State: closed - Opened by celineyayifeng almost 3 years ago - 2 comments

#47 - An error for scCATCH

Issue - State: closed - Opened by kelvinlee760948065 almost 3 years ago - 2 comments

#46 - Error when using findmarkergenes function

Issue - State: closed - Opened by ivy-yuan almost 3 years ago - 4 comments

#45 - Cholmod error 'problem too large'

Issue - State: closed - Opened by oldedios almost 3 years ago - 1 comment

#44 - Could not find function

Issue - State: closed - Opened by VNa24 almost 3 years ago - 4 comments

#43 - How to download all cell markers in a certain tissue embbed in this package?

Issue - State: closed - Opened by JiahuaQu about 3 years ago - 2 comments

#41 - Tissue choice

Issue - State: closed - Opened by lwtan90 about 3 years ago - 1 comment

#40 - only 5 potential marker genes in CellMatch database for Mouse on Skin

Issue - State: closed - Opened by Tommaso12 about 3 years ago - 2 comments

#39 - All the same cell type when using scCATCH on Seurat FindAllMarkers

Issue - State: closed - Opened by darlene003 about 3 years ago - 1 comment

#38 - Interested in combining cancer and non-cancer

Issue - State: closed - Opened by SimoniMD about 3 years ago - 1 comment

#37 - Creating UMAP and PCA Plots after Cluster Annotation and Marker Identification

Issue - State: closed - Opened by phoebe460 over 3 years ago - 1 comment

#36 - Cancer tissues for mouse

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

#35 - Error in scCATCH

Issue - State: closed - Opened by m3lorra over 3 years ago - 1 comment

#34 - Error in rep(clu_num[i], (length(clu_num) - 1)) : invalid 'times' argument

Issue - State: closed - Opened by mbartl13 over 3 years ago - 1 comment

#33 - Issue in findmarkergene function

Issue - State: closed - Opened by s-yadav21 almost 4 years ago - 5 comments

#32 - Error in genedata1$Var1 : $ operator is invalid for atomic vectors

Issue - State: closed - Opened by wolf5996 almost 4 years ago - 3 comments

#31 - new markers added to cellMatch or scCATCH

Issue - State: closed - Opened by Jasonliu21 almost 4 years ago - 1 comment

#30 - Loosing a large number of genes when running findmarkergenes

Issue - State: closed - Opened by nasiegel88 almost 4 years ago - 2 comments

#29 - How to deal with spatial data

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

#28 - SCTransform compatibility with scCATCH

Issue - State: closed - Opened by bounlu almost 4 years ago - 3 comments

#27 - scCATCH changed my seurat cluster ID

Issue - State: closed - Opened by skyfall-lyc about 4 years ago - 1 comment

#26 - scCATCH with Spatial data

Issue - State: closed - Opened by raman91 about 4 years ago - 1 comment

#25 - object not interpretable as a factor

Issue - State: closed - Opened by lxwang326 about 4 years ago - 2 comments

#24 - cancer type的参数设置问题

Issue - State: closed - Opened by lxwang326 about 4 years ago - 2 comments

#23 - Cluster with multiple cell types

Issue - State: closed - Opened by lvweiming about 4 years ago - 2 comments

#22 - cell type identification

Issue - State: closed - Opened by lvweiming about 4 years ago - 3 comments
Labels: good first issue

#21 - CellMatch database updates

Issue - State: closed - Opened by nasiegel88 about 4 years ago - 3 comments

#20 - findmarkergenes and cancer argument

Issue - State: closed - Opened by c1au6i0 about 4 years ago - 2 comments

#19 - Invalid times argument

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

#18 - cannot install scCATCH

Issue - State: closed - Opened by skim245 over 4 years ago - 25 comments
Labels: good first issue

#17 - Minor fixes on paragraphs 71 & 77

Pull Request - State: closed - Opened by kant over 4 years ago

#16 - Incorrect number of dimensions

Issue - State: closed - Opened by plrlhb12 over 4 years ago - 1 comment

#15 - file too large?

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

#14 - invalid character indexing

Issue - State: closed - Opened by Cumol over 4 years ago - 3 comments
Labels: bug

#13 - wrong number of dimensions

Issue - State: closed - Opened by DanielAmsel over 4 years ago - 2 comments
Labels: bug, good first issue

#12 - Invalid 'times' argument

Issue - State: closed - Opened by DanielAmsel over 4 years ago - 1 comment

#11 - fix the problem of large sparse matrix of Seurat

Pull Request - State: closed - Opened by xuzhougeng almost 5 years ago - 1 comment

#10 - Custom CellMatch reference database

Issue - State: closed - Opened by dweemx almost 5 years ago - 1 comment

#8 - Issue with scCATCH undefined columns selected

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

#7 - Workflow with SCTransfrom

Issue - State: closed - Opened by jhb1980 almost 5 years ago - 1 comment

#6 - Error in genedata1$Var1 : $ operator is invalid for atomic vectors

Issue - State: closed - Opened by rhart604 almost 5 years ago - 3 comments

#5 - Issue with scCATCH

Issue - State: closed - Opened by rmondragon90 almost 5 years ago - 4 comments

#4 - not matched with the tissue types in CellMatch database!

Issue - State: closed - Opened by william-swl almost 5 years ago - 2 comments
Labels: good first issue

#3 - Solution for [there is a clutster without a cell type after running scCATCH]

Issue - State: closed - Opened by ZJUFanLab almost 5 years ago
Labels: good first issue