rnabioco clustifyr issues

rnabioco / clustifyr

Infer cell types in scRNA-seq data using bulk RNA-seq or gene sets

https://rnabioco.github.io/clustifyr/

MIT License

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issues

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Seurat V5 compatability

#406 kriemo closed 3 months ago
0
Regenerate example single cell objects

#405 kriemo closed 3 months ago
0
use getter and setter functions from SeuratObject

#404 kriemo closed 3 months ago
0
update clustifyr to work with seurat v5

#403 kriemo closed 3 months ago
0
replace Seurat dependency with SeuratObject

#402 kriemo closed 7 months ago
0
Error in `.rowNamesDF<-`(x, value = value) : duplicate 'row.names' are not allowed

#401 pauldeboissier opened 8 months ago
1
Prepare for upcoming Seurat v5 release

#400 saketkc closed 3 months ago
2
update URL parsing, first column handling, conditionally use data.tab…

#399 kriemo closed 11 months ago
0
get_ucsc_reference : Can't find column `gene` in `.data`.

#398 pauldeboissier closed 11 months ago
3
Create signature matrix with average_clusters() using bulkRNAseq data

#397 saphir746 opened 1 year ago
1
rename master branch to devel

#396 kriemo closed 1 year ago
0
clustify_lists marker gene number and cutoff

#395 liaoshengguang closed 1 year ago
1
maintainer needs to register for bioc support site

#394 jayhesselberth closed 1 year ago
3
invalid URL

#393 jayhesselberth closed 1 year ago
3
Various updates for bioc 3.16

#392 kriemo closed 1 year ago
0
Using marker genes with different length

#391 sofiapuvogelvittini closed 1 year ago
1
new species

#390 wangjiawen2013 closed 1 year ago
1
expression matrix format

#389 wangjiawen2013 closed 1 year ago
1
Change maintainer to @kriemo

#388 jayhesselberth closed 2 years ago
0
Classify cells using known marker genes

#387 sagarutturkar closed 1 year ago
1
clustify_lists - 'pct'

#386 Dazcam closed 2 years ago
3
running clustifyr multiple times

#385 raysinensis opened 3 years ago
0
move seuratV2 support to inst

#384 raysinensis opened 3 years ago
0
Colour palette has too few colours

#383 Dazcam closed 3 years ago
2
Rankdiff

#382 raysinensis closed 3 years ago
0
Rankdiff

#381 raysinensis closed 3 years ago
0
Shiny

#380 raysinensis closed 3 years ago
0
Shiny

#379 raysinensis closed 3 years ago
0
trying to fix cairo in rmd complexheatmap

#378 raysinensis closed 3 years ago
0
revisit `make_comb_ref`, and maybe background functions, in the context of spatial analysis

#377 raysinensis closed 3 years ago
0
utils tutorial

#376 raysinensis closed 3 years ago
0
Seurat default number of variable genes too large

#375 raysinensis closed 3 years ago
0
Seurat 4 compatibility?

#374 Dazcam closed 3 years ago
4
extremely slow when cell_id is passed as metadata

#373 raysinensis closed 3 years ago
0
error with wrapper `clustify` when given object and vector for metadata

#372 raysinensis closed 3 years ago
0
Step by step messaging in verbose mode

#371 raysinensis closed 3 years ago
0
use with spatial data

#370 raysinensis closed 3 years ago
2
WIP, integrate building references from cellbrowsers

#369 kriemo closed 3 years ago
2
utility to build references from public cellbrowsers

#368 kriemo closed 3 years ago
1
Error installing on RStudio Cloud

#367 jayhesselberth closed 3 years ago
0
seurat_ref(): Error when building reference matrix from Seurat object (group length is 0 but data length >0)

#366 federicaress closed 3 years ago
2
intronic reads?

#365 raysinensis opened 3 years ago
0
Update build_atlas function to use local R objects

#364 SidhantPuntambekar closed 3 years ago
0
Contributing

#363 raysinensis closed 3 years ago
0
Write a CONTRIBUTING.md guide

#362 jayhesselberth closed 3 years ago
0
Changed example to examples

#361 SidhantPuntambekar closed 3 years ago
1
Add util functions to clustifyr

#360 SidhantPuntambekar closed 3 years ago
1
if vector of cell types is supplied by metadata = , must error out if lengths are different from count matrix

#359 raysinensis closed 3 years ago
0
Adding util functions: autodetect raw or log matrix

#358 raysinensis closed 3 years ago
1
average_clusters with option to force log or non-log numbers as output

#357 raysinensis closed 3 years ago
1