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1
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571
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How to use lme4() to perform differential expression on bulk RNA seq data with multiple random effects?
bulkRNAseq
lme4
updated 8 weeks ago by
ATpoint
86k • written 8 weeks ago by
bioyas
▴ 20
0
votes
1
reply
424
views
Downloading the raw microarray data from GEO
.gpr
microarray
.CEL
updated 7 months ago by
GenoMax
148k • written 7 months ago by
bioyas
▴ 20
0
votes
0
replies
4.2k
views
Comment:
Comment: Tutorial for analysing gpr files of microarray
8 months ago by
bioyas
▴ 20
0
votes
0
replies
728
views
Integration of scatac-seq data with another integrated scRNA and scATAC data set
Signac
integration
scATAC
Seurat
scRNA
23 months ago by
bioyas
▴ 20
1
vote
1
reply
745
views
separate read1 and read2 from merged fastq file and align against reference genome
fastq
alignment
regex
headers
updated 2.1 years ago by
seidel
11k • written 2.1 years ago by
bioyas
▴ 20
0
votes
0
replies
730
views
Comment:
Comment: different pileups between sorted.bam file and bigwig file
2.6 years ago by
bioyas
▴ 20
0
votes
1
reply
2.4k
views
Comment:
Comment: Loading possorted_genome_bam.bam generated by 10X cellranger count command into
2.6 years ago by
bioyas
▴ 20
0
votes
2
replies
730
views
different pileups between sorted.bam file and bigwig file
bigwig
deeptools
IGV
updated 18 months ago by
Ram
44k • written 2.6 years ago by
bioyas
▴ 20
0
votes
1
reply
2.4k
views
Comment:
Comment: Loading possorted_genome_bam.bam generated by 10X cellranger count command into
2.6 years ago by
bioyas
▴ 20
3
votes
5
replies
2.4k
views
Loading possorted_genome_bam.bam generated by 10X cellranger count command into IGV.
cellranger
deeptools
bigwig
IGV
single-cell
updated 18 months ago by
Ram
44k • written 2.6 years ago by
bioyas
▴ 20
1
vote
2
replies
2.7k
views
quantify counts from sorted bam files using a bed file containing regions of interest
counts
featureCount
bam
Bed
updated 2.8 years ago by
Malcolm.Cook
★ 1.5k • written 2.8 years ago by
bioyas
▴ 20
0
votes
1
reply
9.3k
views
Comment:
Comment: filter out fasta File by pattern
2.8 years ago by
bioyas
▴ 20
3
votes
4
replies
1.5k
views
Convert per base bedgraph to Bed format
Bedgraph
perbase
Bed
Bedtools
updated 3.7 years ago by
Alex Reynolds
36k • written 3.7 years ago by
bioyas
▴ 20
0
votes
0
replies
2.0k
views
Comment:
C: How to Identify Housekeeping genes from gene expression matrix and normalize the
4.2 years ago by
bioyas
▴ 20
0
votes
1
reply
2.0k
views
Comment:
C: How to Identify Housekeeping genes from gene expression matrix and normalize the
4.2 years ago by
bioyas
▴ 20
0
votes
1
reply
2.0k
views
Comment:
C: How to Identify Housekeeping genes from gene expression matrix and normalize the
4.2 years ago by
bioyas
▴ 20
1
vote
6
replies
2.0k
views
How to Identify Housekeeping genes from gene expression matrix and normalize the data
housekeeping genes
normalization
R
edger
limma
4.2 years ago by
bioyas
▴ 20
0
votes
0
replies
1.5k
views
Comment:
C: Differential Expression analysis between single cell RNa seq & bulk RNa seq data
4.4 years ago by
bioyas
▴ 20
1
vote
3
replies
1.5k
views
Differential Expression analysis between single cell RNa seq & bulk RNa seq data
rna-seq
Bulk rna seq
DE analysis
SC-RNA-sq
updated 4.4 years ago by
swbarnes2
14k • written 4.4 years ago by
bioyas
▴ 20
0
votes
1
reply
34k
views
Comment:
C: Can the code of a R package be changed? How?
4.6 years ago by
bioyas
▴ 20
5
votes
5
replies
4.1k
views
DEG analysis between 2 samples using edger
edger
RNA-Seq
biological_replicates
updated 4.6 years ago by
Gordon Smyth
★ 7.7k • written 4.6 years ago by
bioyas
▴ 20
0
votes
1
reply
4.1k
views
Comment:
C: DEG analysis between 2 samples using edger
4.6 years ago by
bioyas
▴ 20
0
votes
0
replies
1.6k
views
Comment:
C: getting 0 counts using hisat2 and feature_count pipeline
4.9 years ago by
bioyas
▴ 20
0
votes
1
reply
1.6k
views
Comment:
C: getting 0 counts using hisat2 and feature_count pipeline
4.9 years ago by
bioyas
▴ 20
3
votes
4
replies
1.6k
views
getting 0 counts using hisat2 and feature_count pipeline
RNA-Seq
Hisat2
featurecounts
count
updated 4.9 years ago by
swbarnes2
14k • written 4.9 years ago by
bioyas
▴ 20
3
votes
4
replies
6.3k
views
How to get the gene expression matrix from GEO while getGEO returns 0 features?
GETquery
ATAC-seq
GEO
getGEO
RNA-Seq
updated 18 months ago by
Ram
44k • written 5.4 years ago by
bioyas
▴ 20
0
votes
1
reply
6.3k
views
Comment:
C: How to get the gene expression matrix from GEO while getGEO returns 0 features?
5.4 years ago by
bioyas
▴ 20
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