Ecosyste.ms: Issues

An open API service for providing issue and pull request metadata for open source projects.

GitHub / Teichlab/celltypist issues and pull requests

#143 - issue with importing the library

Issue - State: open - Opened by fahmadimoughari about 1 month ago - 1 comment

#142 - Custom Model

Issue - State: open - Opened by nemeskolos 2 months ago - 2 comments

#141 - Adding use_GPU option in command line usage

Issue - State: closed - Opened by Dkaaaaa 2 months ago - 2 comments

#140 - module 'celltypist' has no attribute 'extract_top_markers'

Issue - State: open - Opened by VittoriaDBocchi 3 months ago - 2 comments

#139 - why do fibroblast,endothelial,epithelial exit in immune_ALL_High_model?

Issue - State: open - Opened by echovv 3 months ago - 1 comment

#137 - Cluster level annotation question

Issue - State: open - Opened by liuyang2006 4 months ago - 1 comment

#136 - Remove majority voting

Pull Request - State: closed - Opened by Mena-SA-Kamel 4 months ago

#135 - Celltypist's MIT license and GPL dependency leidenalg

Issue - State: open - Opened by PertuyF 4 months ago

#134 - cluster free annotation

Issue - State: open - Opened by Flu09 4 months ago - 1 comment

#133 - Failure to install

Issue - State: open - Opened by tricityandrew 5 months ago - 1 comment

#132 - SCT Object Compatibility with celltypist

Issue - State: open - Opened by katkatrach 5 months ago - 2 comments

#131 - AnnData Backed Mode Support

Issue - State: open - Opened by kennypavan 5 months ago - 2 comments

#130 - The full names of cell types

Issue - State: closed - Opened by BioAmelie 5 months ago

#128 - downsampling before training the model

Issue - State: open - Opened by Flu09 6 months ago - 1 comment

#127 - Is celltypist suitable for predicting mouse immune types？

Issue - State: open - Opened by ttt-404 6 months ago - 2 comments

#126 - Cell Typist Providing different results between iterations

Issue - State: open - Opened by ManuelSokolov 6 months ago - 6 comments

#125 - Cellxgene links offline

Issue - State: open - Opened by canergen 6 months ago - 1 comment

#124 - sklearn version log/log_loss

Issue - State: open - Opened by JAshcroft36 7 months ago - 1 comment

#123 - Any reason why CellTypist is not part of scverse ecosystem?

Issue - State: closed - Opened by Rafael-Silva-Oliveira 7 months ago - 2 comments

#122 - Issue with Offline Label Transfer

Issue - State: open - Opened by macelik 8 months ago - 2 comments

#120 - Issue accessing www.celltypist.org - 502 Bad Gateway

Issue - State: closed - Opened by lucygarner 9 months ago - 5 comments

#119 - celltypist before/after batch correction

Issue - State: open - Opened by malonzm1 9 months ago - 10 comments

#118 - Very low confidence score even though labels are correct

Issue - State: closed - Opened by mousepixels 10 months ago - 2 comments

#117 - Can not download the model

Issue - State: closed - Opened by Knight1995 10 months ago - 2 comments

#116 - www.celltypist.org is down, cannot download models

Issue - State: closed - Opened by sztankatt 10 months ago - 3 comments

#115 - Conflict with variable genes and model training

Issue - State: closed - Opened by mousepixels 10 months ago - 1 comment

#114 - Question about over_clustering and conf_score?

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

#113 - Add rsc support

Pull Request - State: closed - Opened by Intron7 10 months ago - 3 comments

#112 - multiple models

Issue - State: open - Opened by anke-king 11 months ago - 7 comments

#110 - Feature: Support Rapids-singlecell

Issue - State: closed - Opened by Intron7 11 months ago - 1 comment

#109 - is it available to generate model.pkl file from a marker gene list

Issue - State: closed - Opened by fnhe 11 months ago - 1 comment

#108 - ValueError in celltypist.annotate

Issue - State: closed - Opened by katecycho 12 months ago - 3 comments

#106 - Running celltypist with concatenated dataset

Issue - State: closed - Opened by malonzm1 about 1 year ago - 4 comments

#105 - Cluster-level label prediction

Issue - State: closed - Opened by pwwang about 1 year ago - 1 comment

#104 - Immune_All_Low - model training question

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

#103 - CellTypist_Immune_Reference_v2 question

Issue - State: closed - Opened by NikicaJEa about 1 year ago - 2 comments

#102 - the question about conf_score

Issue - State: closed - Opened by Xyihang about 1 year ago - 3 comments

#101 - codes for harmonizing the cell labels

Issue - State: closed - Opened by YOU-k about 1 year ago - 2 comments

#100 - " have completed preprocessing and cell clustering. "

Issue - State: closed - Opened by Xyihang about 1 year ago - 2 comments

#99 - Feature Request: Store freqs in annotation when majority_vote set to True

Issue - State: closed - Opened by eroell about 1 year ago - 2 comments

#98 - unable to download models

Issue - State: open - Opened by mxiang1 about 1 year ago - 4 comments

#97 - Use of metacells?

Issue - State: closed - Opened by andreahanel about 1 year ago - 4 comments

#95 - Unable to allocate xxx GiB for an array with shape and data type float64

Issue - State: closed - Opened by zqxiao2001 over 1 year ago - 2 comments

#94 - Using model trained by scRNA-seq datasets to predict Spatial transcriptmoic dataset

Issue - State: closed - Opened by SNOL2 over 1 year ago - 2 comments

#93 - Update plot.py

Pull Request - State: closed - Opened by milescsmith over 1 year ago - 3 comments

#92 - Issues running with conda

Issue - State: closed - Opened by edridgedsouza over 1 year ago - 3 comments

#91 - confidence score definition

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

#90 - Request: allow to specify AnnData layer to use

Issue - State: open - Opened by pcm32 over 1 year ago - 1 comment

#89 - Potentially misleading error when counts are not in expected range

Issue - State: closed - Opened by padix-key over 1 year ago - 3 comments

#88 - Harmonize and Integrate

Issue - State: closed - Opened by YawnC over 1 year ago - 1 comment

#86 - Error running celltypist

Issue - State: closed - Opened by malonzm1 over 1 year ago - 10 comments

#85 - Preparing custom reference files

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

#84 - KeyError when insert conf of majority_voting under `porb match` mode

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

#82 - Error happened in models

Issue - State: open - Opened by anyang-kevin over 1 year ago - 8 comments

#81 - Error in downloading models

Issue - State: closed - Opened by Tailion9 over 1 year ago

#80 - cuml training LogisticRegression.

Pull Request - State: closed - Opened by canergen over 1 year ago

#79 - sankeyplot fails in V.1.5.3

Issue - State: closed - Opened by rgranit over 1 year ago - 4 comments

#78 - Can not import celltypist

Issue - State: closed - Opened by Jiam1ng over 1 year ago - 1 comment

#77 - Add yaml file

Pull Request - State: closed - Opened by ChuanXu1 over 1 year ago

#76 - certificate verification failed when trying to load models

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

#74 - impatiently waiting for V2 (but very excited)

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

#73 - `ImportError` with `sklearn==1.3.0`

Issue - State: closed - Opened by sunnyosun over 1 year ago - 3 comments

#72 - T helper cells

Issue - State: closed - Opened by SirKuikka over 1 year ago - 1 comment

#71 - reannotation returns many "UNASSIGNED" cells

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

#70 - fix download_models when the server is unavailable

Pull Request - State: closed - Opened by prete over 1 year ago

#69 - Temporary patch anndata uns.log1p serialization issue

Pull Request - State: closed - Opened by prete over 1 year ago

#68 - Issue with downloading models: 503 Server Error

Issue - State: closed - Opened by jkbenotmane over 1 year ago - 4 comments

#67 - download_models corrupts models.json when the server is unavailable

Issue - State: closed - Opened by itamarb-cgen over 1 year ago - 3 comments

#66 - 503 error in models.download_models

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

#65 - type error when the input is Anndata

Issue - State: closed - Opened by jjxia955 over 1 year ago - 8 comments

#64 - Harmonizing datasets with missing annotations

Issue - State: closed - Opened by pakiessling over 1 year ago - 1 comment

#63 - Training data for Immune_All_Low

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

#62 - Input with 10x matrix containing Antibody Capture

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

#61 - Contro

Pull Request - State: closed - Opened by ChuanXu1 almost 2 years ago

#60 - Loading custom model

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

#59 - NK cells vs CD16+/ CD16- cells

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

#58 - TypeError: reorder_categories() got an unexpected keyword argument 'inplace'

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

#57 - Cell Encyclopedia Link Broken

Issue - State: open - Opened by ChaseTaylor939 almost 2 years ago - 1 comment

#56 - conda version is out of date.

Issue - State: closed - Opened by bioworker almost 2 years ago - 5 comments

#55 - Only 9 features were used for prediction

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

#54 - Adding a version argument to download_models

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

#53 - Adult_Mouse_Gut cell types

Issue - State: closed - Opened by ejc043 about 2 years ago - 5 comments

#52 - Getting error when running predictions follow tutorial

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

#51 - Getting error when running predictions

Issue - State: closed - Opened by dadarenedo about 2 years ago - 8 comments

#49 - Train Custom Model on scATAC-seq data?

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

#48 - Training new model gives ValueError

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

#47 - predictions.to_adata() error

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

#45 - Genes driving the prediction

Issue - State: closed - Opened by cdiaz45 about 2 years ago - 2 comments