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Comment: C: Differential-expression analysis using logistic regression in Seurat - glm.fit w
5.2 years ago by Lucy ▴ 160
1
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2
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2.6k
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Differential-expression analysis using logistic regression in Seurat - glm.fit warning message
scRNA-seq Seurat Differential-expression analysis
updated 5.2 years ago by ★ 18k • written 5.2 years ago by ▴ 160
0
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0
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3.9k
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Answer: A: Does Harmony batch correction for scRNA-seq require the same populations to be p
5.2 years ago by Lucy ▴ 160
1
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3
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3.9k
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Does Harmony batch correction for scRNA-seq require the same populations to be present in all samples?
Harmony single-cell scRNA-seq batch-effect
updated 8 months ago by 44k • written 5.2 years ago by ▴ 160
7
votes
2
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2.6k
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Clustering resolution single-cell RNA-seq
scRNA-seq RNA-seq clustering single-cell
updated 14 months ago by ▴ 230 • written 5.2 years ago by ▴ 160
0
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0
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2.3k
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Downsampling reads vs. Seurat normalisation
RNA-Seq scRNA-seq DropletUtils single-cell
5.2 years ago by Lucy ▴ 160
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0
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7.8k
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Comment: C: Harmony batch correction vs. regressing out donor effect in Seurat
5.2 years ago by Lucy ▴ 160
0
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1
reply
7.8k
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Comment: C: Harmony batch correction vs. regressing out donor effect in Seurat
5.2 years ago by Lucy ▴ 160
10
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10
replies
7.8k
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Harmony batch correction vs. regressing out donor effect in Seurat
Seurat scRNA-seq Harmony RNA-seq batch-effect
updated 8 months ago by 44k • written 5.2 years ago by ▴ 160
0
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0
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1.6k
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Comment: C: ATAC-seq transcription factor binding prediction
5.2 years ago by Lucy ▴ 160
0
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0
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1.2k
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Should batch correction be performed before or after feature selection in scRNA-seq
batch-effect scRNA-seq feature-selection
updated 8 months ago by 44k • written 5.6 years ago by ▴ 160
0
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4
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1.6k
views
ATAC-seq transcription factor binding prediction
ATAC-seq RNA-seq transcription factor
updated 5.9 years ago by • 0 • written 6.1 years ago by ▴ 160
2
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1
reply
3.3k
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Homer annotatePeaks.pl custom GTF
Homer ATAC-seq GTF
5.9 years ago by Lucy ▴ 160
0
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1
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2.8k
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Comment: C: Aligning RNA-seq and ATAC-seq gene annotations
5.9 years ago by Lucy ▴ 160
0
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4
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2.8k
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Aligning RNA-seq and ATAC-seq gene annotations
Homer RNA-seq ATAC-seq Gene annotation
5.9 years ago by Lucy ▴ 160
0
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0
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16k
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Comment: C: FRIP score ATAC-seq
6.0 years ago by Lucy ▴ 160
0
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0
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912
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CENTIPEDE - values from fitCentipede
centipede R ATAC-seq
updated 6.0 years ago by 20 • written 6.2 years ago by ▴ 160
0
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0
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4.3k
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Comment: A: HOMER de novo motif enrichment
6.0 years ago by Lucy ▴ 160
0
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2
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4.3k
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HOMER de novo motif enrichment
HOMER Motif enrichment
6.0 years ago by Lucy ▴ 160
0
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0
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802
views
Error with fitCentipede
Centipede R
6.1 years ago by Lucy ▴ 160
0
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0
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1.7k
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featureCounts - how to make ATAC-seq cut-sites BAM
featureCounts bed
updated 21 months ago by 44k • written 6.2 years ago by ▴ 160
0
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0
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2.4k
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Comment: C: featureCounts allowMultiOverlap - fractional or not?
6.2 years ago by Lucy ▴ 160
0
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0
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1.9k
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Comment: C: When using MACS2 with -f BAM, it is possible to have a shift other than 0?
6.2 years ago by Lucy ▴ 160
0
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2
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2.4k
views
featureCounts allowMultiOverlap - fractional or not?
featureCounts ATAC-seq
6.2 years ago by Lucy ▴ 160
0
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4
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1.9k
views
When using MACS2 with -f BAM, it is possible to have a shift other than 0?
macs2 macs
updated 6.2 years ago by 20 • written 6.3 years ago by ▴ 160
17
votes
12
replies
16k
views
FRIP score ATAC-seq
ATAC-seq FRIP
updated 6.3 years ago by ▴ 30 • written 6.3 years ago by ▴ 160
0
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1
reply
2.7k
views
Comment: C: Determine peak summits after IDR analysis
6.3 years ago by Lucy ▴ 160
3
votes
4
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2.7k
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Determine peak summits after IDR analysis
macs2 idr peak summits
updated 6.3 years ago by 36k • written 6.3 years ago by ▴ 160
0
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0
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2.7k
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Comment: C: Determine peak summits after IDR analysis
6.3 years ago by Lucy ▴ 160
0
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1
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1.9k
views
Comment: C: When using MACS2 with -f BAM, it is possible to have a shift other than 0?
6.3 years ago by Lucy ▴ 160
0
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0
replies
39k
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Comment: C: ATAC-seq peak calling with MACS
6.3 years ago by Lucy ▴ 160
0
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1
reply
2.0k
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Comment: C: shift direction in ATAC/DNase data?
6.3 years ago by Lucy ▴ 160
0
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1
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1.2k
views
Should --very-sensitive be combined with -no-1mm-upfront?
bowtie2 bowtie
updated 6.3 years ago by 105k • written 6.3 years ago by ▴ 160
83 results • Page 2 of 2
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