Bioconductor Simplesinglecell

Showing : simplesinglecell • reset

votes

4.4k

views

DropletUtils EmptyDrops simpleSingleCell

updated 20 months ago by Stefano Mangiola ▴ 10 • written 4.7 years ago by shbrief ▴ 20

votes

replies

1.9k

views

DropletUtils scRNA-seq emptyDrops simplesinglecell cell calling

updated 3.5 years ago by Aaron Lun ★ 28k • written 4.6 years ago by C T ▴ 140

votes

replies

1.2k

views

simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

vote

666

views

simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

vote

replies

1.6k

views

scran simpleSingleCell

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Angelos Armen • 0

votes

replies

2.8k

views

limma edgeR simplesingleCell scran scater

updated 4.7 years ago by Aaron Lun ★ 28k • written 4.7 years ago by Bogdan ▴ 670

votes

replies

1.6k

views

SingleCellExperiment scran limma simpleSingleCell

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by Matt Mulé • 0

vote

replies

1.6k

views

DropletUtils SingleCellExperiement DelayedArray simpleSingleCell

updated 4.9 years ago by Aaron Lun ★ 28k • written 4.9 years ago by Steve Pederson ▴ 170

votes

replies

2.3k

views

singlecellexperiment dropletutils simplesinglecell

updated 5.5 years ago by Aaron Lun ★ 28k • written 5.5 years ago by Peter Hickey ▴ 740

votes

845

views

workflows simplesinglecell

updated 5.6 years ago by Aaron Lun ★ 28k • written 5.6 years ago by es.azadian • 0

votes

935

views

simplesinglecell

updated 6.1 years ago by Aaron Lun ★ 28k • written 6.1 years ago by Xingyu • 0

vote

replies

1.8k

views

scater singlecellexperiment simplesinglecell

updated 6.2 years ago by Aaron Lun ★ 28k • written 6.2 years ago by Xingyu • 0

votes

replies

3.1k

views

scater simpleSingleCell workflows

updated 6.8 years ago by Aaron Lun ★ 28k • written 6.8 years ago by sandmann.t ▴ 70

13 results • Page 1 of 1

Recent ...

Replies

Comment: Which input file is used for DGEList in EgdeR? by Michael Love 41k

"gene_counts_length_scaled.tsv file generated by the nf-core be exactly that?" No that is the counts scaled by the length. Counts + offset…

Comment: DESeq2 a lot of genes showing up as differentially expressed that only have 1 sa by Michael Love 41k

These genes are fine. They are just the ones where, by chance, the sample variance is below the sample mean. It happens. DESeq2 brings thes…

Comment: DEG with low counts by Michael Love 41k

These counts are too low, only a few samples above a count of 10. So for typical RNA-seq data that is underpowered to call differences. It…

Comment: DESeq filtering specific to contrasts by Michael Love 41k

If the counts are too low it in one group then you can't make the comparison either way (whether they are filtered out or just under-powere…

Comment: Estimating Cell Counts for EPIC V2 array data by normawiedman059 • 0

0 [103] spam_2.9-1 doParallel_1.0.17 iterators_1.0.14 [106] foreach_1.5.2 beeswarm_0.4.0 tgp_2.4-20 [109] beanplot_1.3.1 fpc_2.2-9 dbscan_1…

Votes

A: Docker container with bioconductor and devtools

Answer: OrgDb for maize

Comment: significant difference of p-values with dream() after updating VariancePartition

How to tell and visualize up/down regulation of pathways from clusterprofiler gsea output

Comment: DEXSeq DEXSeqDataSet count matrix duplication

Awards • All