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0
votes
3
replies
407
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DEseq2 with different designs matrix
DEseq2
10 days ago by
QX
▴ 60
0
votes
0
replies
121
views
Different position for same gene using annotatePeak from ChIPseeker
ChIPseeker
ATACseq
16 days ago by
QX
▴ 60
0
votes
0
replies
130
views
plotHeatmap from deeptools explain
atac-seq
16 days ago by
QX
▴ 60
5
votes
4
replies
420
views
difference between macs2 callpeak using bam and bed file
macs2
atac-seq
25 days ago by
QX
▴ 60
2
votes
5
replies
406
views
call peak for all replicates in all conditions using macs2
macs2
ATACseq
updated 28 days ago by
zau saa
▴ 150 • written 29 days ago by
QX
▴ 60
1
vote
4
replies
346
views
trimming 151bp to shorter k-mer in ATAC-seq analysis
ATAC-seq
28 days ago by
QX
▴ 60
3
votes
6
replies
520
views
which bed file should be used for deeptools computeMatrix
atac-seq
deeptools
updated 4 weeks ago by
Ming Tommy Tang
★ 4.3k • written 5 weeks ago by
QX
▴ 60
0
votes
0
replies
157
views
reference-point setting from computeMatrix
ATACseq
5 weeks ago by
QX
▴ 60
0
votes
0
replies
124
views
which distance used for kmeans in deeptools plotHeatmap
atac
deeptools
5 weeks ago by
QX
▴ 60
1
vote
1
reply
206
views
merge replicate for bigWig files from macs2 peak calling
ATAC-seq
updated 5 weeks ago by
ATpoint
84k • written 5 weeks ago by
QX
▴ 60
4
votes
4
replies
286
views
MACS2 for multiple conditions in ATACseq analysis
mac2
6 weeks ago by
QX
▴ 60
4
votes
4
replies
505
views
Increase the memory and core usage of R
R
updated 6 weeks ago by
Mensur Dlakic
★ 28k • written 7 weeks ago by
QX
▴ 60
3
votes
2
replies
366
views
is that statistical correct to use DEseq2 for proteomics data
proteomics
DEseq2
updated 7 weeks ago by
ATpoint
84k • written 7 weeks ago by
QX
▴ 60
4
votes
8
replies
495
views
featureCounts output
macs2
featureCounts
updated 6 weeks ago by
rfran010
★ 1.3k • written 7 weeks ago by
QX
▴ 60
2
votes
6
replies
438
views
input for gatk VariantAnnotator --dbsnp
VariantAnnotator
gatk
updated 8 weeks ago by
GenoMax
145k • written 8 weeks ago by
QX
▴ 60
5
votes
5
replies
435
views
best way to submit hpc job using snakemake
snakemake
9 weeks ago by
QX
▴ 60
1
vote
3
replies
290
views
snakemake config file with path
snakemake
updated 9 weeks ago by
pbioinf
▴ 140 • written 9 weeks ago by
QX
▴ 60
0
votes
2
replies
290
views
how to colorize snakemake editing text
snakemake
updated 10 weeks ago by
Michael
55k • written 10 weeks ago by
QX
▴ 60
3
votes
5
replies
524
views
Calling variants/SNP for single-cell RNA-seq data
SNP
scRNAseq
updated 17 days ago by
yura.grabovska
▴ 420 • written 11 weeks ago by
QX
▴ 60
2
votes
1
reply
291
views
Split the fastqc file base on barcode
fastq
updated 3 months ago by
GenoMax
145k • written 3 months ago by
QX
▴ 60
2
votes
3
replies
382
views
bash for merging bam files by samtools
samtools
updated 3 months ago by
GenoMax
145k • written 3 months ago by
QX
▴ 60
5
votes
3
replies
492
views
chIP-seq vs ATACseq analysis
ATACseq
3 months ago by
QX
▴ 60
0
votes
1
reply
332
views
invalid class “Assay” object issue from Seurat
seurat
updated 3 months ago by
bk11
★ 2.9k • written 3 months ago by
QX
▴ 60
8
votes
3
replies
453
views
conda-like env for R
R
conda
updated 3 months ago by
dthorbur
★ 2.4k • written 3 months ago by
QX
▴ 60
2
votes
1
reply
247
views
Trimming from 151bp to 65bp
sequencing
data
updated 3 months ago by
GenoMax
145k • written 3 months ago by
QX
▴ 60
5
votes
11
replies
627
views
6 follow
Asking for parallel jobs setting on HPC when analyzing sequencing data
HPC
parallel
updated 3 months ago by
Darked89
4.6k • written 3 months ago by
QX
▴ 60
4
votes
2
replies
366
views
cannot conda install macs3 on linux
atac
macs3
3 months ago by
QX
▴ 60
3
votes
5
replies
622
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 3 months ago by
Pierre Lindenbaum
163k • written 3 months ago by
QX
▴ 60
3
votes
3
replies
424
views
Unexpected read length from NGS
NGS
Illumina
3 months ago by
QX
▴ 60
3
votes
4
replies
605
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
4 months ago by
QX
▴ 60
0
votes
0
replies
179
views
Add geno header to VariantAnnotation objects
nichenet
scRNA-seq
5 months ago by
QX
▴ 60
0
votes
0
replies
157
views
NicheNet cell-cell communication analysis outcome
nichenet
scRNA-seq
5 months ago by
QX
▴ 60
2
votes
3
replies
535
views
Annotate genes from gtf file to vcf file
gtf
genomics
vcf
5 months ago by
QX
▴ 60
0
votes
1
reply
285
views
Adding gene to GRange objects with single base
GRanges
genomics
updated 5 months ago by
ATpoint
84k • written 5 months ago by
QX
▴ 60
0
votes
1
reply
270
views
SNP and Genes position matching dataframes in R
R
dataframe
updated 6 months ago by
dthorbur
★ 2.4k • written 6 months ago by
QX
▴ 60
2
votes
1
reply
254
views
Computing the neighborhood graph in single cell pipeline
single-cell
knn
updated 6 months ago by
ATpoint
84k • written 6 months ago by
QX
▴ 60
0
votes
2
replies
404
views
Visualize and access gvcf/vcf files
genomics
vcf
updated 9 weeks ago by
venkat
▴ 10 • written 6 months ago by
QX
▴ 60
0
votes
2
replies
880
views
problem with importing mtx file in scanpy
scanpy
scRNAseq
8 months ago by
QX
▴ 60
1
vote
1
reply
443
views
Variant calling using HaplotypeCaller does not show #FILTER information
Variant-calling
GATK
HaplotypeCaller
WGS
updated 9 months ago by
Ram
44k • written 9 months ago by
QX
▴ 60
5
votes
2
replies
532
views
Execute R command on specific termimal
R
updated 9 months ago by
Ram
44k • written 9 months ago by
QX
▴ 60
3
votes
4
replies
1.0k
views
Downstream analysis with DEseq2 normalization
DEseq2
integration
9 months ago by
QX
▴ 60
4
votes
2
replies
590
views
Normalization function in DEseq2
DEseq2
10 months ago by
QX
▴ 60
0
votes
0
replies
294
views
What is the difference between CNV binning and aligning to gene?
CNV
transcriptomics
10 months ago by
QX
▴ 60
2
votes
1
reply
488
views
Integrate proteomics and scRNA-seq datasets
scRNA-seq
omics
protemics
updated 13 months ago by
bk11
★ 2.9k • written 13 months ago by
QX
▴ 60
3
votes
4
replies
790
views
Integrate transcriptomics and CNV
CNV
omics
13 months ago by
QX
▴ 60
0
votes
0
replies
290
views
Normalization of NGS data to make CNV calls
CNV
Normalization
WGS
13 months ago by
QX
▴ 60
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