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How to use lme4() to perform differential expression on bulk RNA seq data with multiple random effects?
bulkRNAseq lme4
updated 9 months ago by 88k • written 9 months ago by ▴ 20
0
votes
1
reply
572
views
Downloading the raw microarray data from GEO
.gpr microarray .CEL
updated 14 months ago by 152k • written 14 months ago by ▴ 20
0
votes
0
replies
902
views
Integration of scatac-seq data with another integrated scRNA and scATAC data set
Signac integration scATAC Seurat scRNA
2.5 years ago by bioyas ▴ 20
1
vote
1
reply
930
views
separate read1 and read2 from merged fastq file and align against reference genome
fastq alignment regex headers
updated 2.7 years ago by 11k • written 2.7 years ago by ▴ 20
0
votes
2
replies
873
views
different pileups between sorted.bam file and bigwig file
bigwig deeptools IGV
updated 2.1 years ago by 45k • written 3.2 years ago by ▴ 20
3
votes
5
replies
3.0k
views
Loading possorted_genome_bam.bam generated by 10X cellranger count command into IGV.
cellranger deeptools bigwig IGV single-cell
updated 2.1 years ago by 45k • written 3.2 years ago by ▴ 20
1
vote
2
replies
3.8k
views
quantify counts from sorted bam files using a bed file containing regions of interest
counts featureCount bam Bed
updated 3.3 years ago by ★ 1.5k • written 3.3 years ago by ▴ 20
3
votes
4
replies
1.8k
views
Convert per base bedgraph to Bed format
Bedgraph perbase Bed Bedtools
updated 4.2 years ago by 36k • written 4.3 years ago by ▴ 20
1
vote
6
replies
2.3k
views
How to Identify Housekeeping genes from gene expression matrix and normalize the data
housekeeping genes normalization R edger limma
4.8 years ago by bioyas ▴ 20
1
vote
3
replies
1.7k
views
Differential Expression analysis between single cell RNa seq & bulk RNa seq data
rna-seq Bulk rna seq DE analysis SC-RNA-sq
updated 5.0 years ago by 15k • written 5.0 years ago by ▴ 20
5
votes
5
replies
4.8k
views
DEG analysis between 2 samples using edger
edger RNA-Seq biological_replicates
updated 5.2 years ago by ★ 8.2k • written 5.2 years ago by ▴ 20
3
votes
4
replies
1.8k
views
getting 0 counts using hisat2 and feature_count pipeline
RNA-Seq Hisat2 featurecounts count
updated 5.5 years ago by 15k • written 5.5 years ago by ▴ 20
3
votes
4
replies
8.2k
views
How to get the gene expression matrix from GEO while getGEO returns 0 features?
GETquery ATAC-seq GEO getGEO RNA-Seq
updated 2.1 years ago by 45k • written 6.0 years ago by ▴ 20
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