fig:unref-416b-qc-dist
fig:unref-416b-qc-comp
fig:unref-416b-norm
fig:unref-416b-variance
fig:unref-416b-tsne
fig:unref-416b-silhouette
fig:unref-416b-markers
fig:unref-zeisel-qc-dist
fig:unref-zeisel-qc-comp
fig:unref-zeisel-norm
fig:unref-zeisel-var
fig:unref-zeisel-tsne
fig:unref-zeisel-heat-cell
fig:unref-zeisel-heat-lfc
fig:unref-unfiltered-pbmc-qc
fig:unref-unfiltered-pbmc-mito
fig:unref-unfiltered-pbmc-norm
fig:unref-unfiltered-pbmc-var
fig:unref-unfiltered-pbmc-tsne
fig:unref-mono-pbmc-markers
fig:unref-pbmc-adt-qc
fig:unref-pbmc-adt-qc-mito
fig:unref-norm-pbmc-adt
fig:unref-clustmod-pbmc-adt
fig:unref-tsne-pbmc-adt
fig:unref-grun-qc-dist
fig:unref-grun-norm
fig:unref-grun-tsne
fig:unref-muraro-qc-dist
fig:unref-muraro-norm
fig:unref-muraro-variance
fig:unref-seger-heat
fig:unref-muraro-tsne
fig:unref-lawlor-qc-dist
fig:unref-lawlor-qc-comp
fig:unref-lawlor-norm
fig:unnamed-chunk-4
fig:unref-seger-qc-dist
fig:unref-seger-norm
fig:unref-seger-variance
fig:unref-seger-heat-1
fig:unref-seger-tsne
fig:unref-seger-tsne-correct
fig:unref-ma-plots
fig:unref-voom-plots
fig:unref-hgrun-qc-dist
fig:unref-hgrun-norm
fig:unref-hgrun-var
fig:unref-hgrun-tsne
fig:unref-heat-hgrun-markers
fig:unref-nest-qc-dist
fig:unref-nest-norm
fig:unref-nest-var
fig:unref-nest-tsne
fig:unref-heat-nest-markers
fig:unref-assignments-nest
fig:unref-nest-facs
fig:unref-paul-qc-dist
fig:unref-paul-norm
fig:unref-paul-var
fig:unref-paul-heat
fig:unref-paul-tsne
fig:unref-paul-tsne2
fig:unref-bach-qc-dist
fig:unref-bach-qc-comp
fig:unref-bach-norm
fig:unref-bach-var
fig:unref-bach-tsne
fig:unref-messmer-hesc-qc
fig:unref-messmer-hesc-norm
fig:unref-messmer-hesc-cyclone
fig:unref-messmer-hesc-var
fig:unref-messmer-hesc-tsne
fig:unref-messmer-hesc-cpca-tsne
fig:unref-hca-bone-qc
fig:unref-hca-bone-mito
fig:unref-hca-bone-var
fig:unref-hca-bone-ab
fig:unref-hca-bone-umap
fig:unref-hca-bone-heatmap
lun-416b-cell-line-smart-seq2
introduction
data-loading
quality-control
normalization
variance-modelling
batch-correction
dimensionality-reduction
clustering
interpretation
zeisel-mouse-brain-strt-seq
introduction-1
data-loading-1
quality-control-1
normalization-1
variance-modelling-1
dimensionality-reduction-1
clustering-1
interpretation-1
unfiltered-human-pbmcs-10x-genomics
introduction-2
data-loading-2
quality-control-2
normalization-2
variance-modelling-2
dimensionality-reduction-2
clustering-2
interpretation-2
human-pbmc-with-surface-proteins-10x-genomics
introduction-3
data-loading-3
quality-control-3
normalization-3
dimensionality-reduction-3
clustering-3
grun-human-pancreas-cel-seq2
introduction-4
data-loading-4
quality-control-4
normalization-4
variance-modelling-3
data-integration
dimensionality-reduction-4
clustering-4
muraro-human-pancreas-cel-seq
introduction-5
data-loading-5
quality-control-5
normalization-5
variance-modelling-4
data-integration-1
dimensionality-reduction-5
clustering-5
lawlor-human-pancreas-smarter
introduction-6
data-loading-6
quality-control-6
normalization-6
variance-modelling-5
dimensionality-reduction-6
clustering-6
segerstolpe-human-pancreas-smart-seq2
introduction-7
data-loading-7
quality-control-7
normalization-7
variance-modelling-6
dimensionality-reduction-7
clustering-7
data-integration-2
segerstolpe-comparison
grun-mouse-hsc-cel-seq
introduction-8
data-loading-8
quality-control-8
normalization-8
variance-modelling-7
dimensionality-reduction-8
clustering-8
marker-gene-detection
nestorowa-mouse-hsc-smart-seq2
introduction-9
data-loading-9
quality-control-9
normalization-9
variance-modelling-8
dimensionality-reduction-9
clustering-9
marker-gene-detection-1
cell-type-annotation
miscellaneous-analyses
paul-mouse-hsc-mars-seq
introduction-10
data-loading-10
quality-control-10
normalization-10
variance-modelling-9
dimensionality-reduction-10
clustering-10
bach-mouse-mammary-gland-10x-genomics
introduction-11
data-loading-11
quality-control-11
normalization-11
variance-modelling-10
dimensionality-reduction-11
clustering-11
messmer-hesc
introduction-12
data-loading-12
quality-control-12
normalization-12
cell-cycle-phase-assignment
feature-selection
batch-correction-1
dimensionality-reduction-12
hca-human-bone-marrow-10x-genomics
introduction-13
data-loading-13
quality-control-13
normalization-13
variance-modeling
data-integration-3
dimensionality-reduction-13
clustering-12
differential-expression
cell-type-classification
