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3
votes
2
replies
350
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Alignment algorithm for DNA sequencing
sequencing
data
DNA
updated 5 weeks ago by
ATpoint
87k • written 5 weeks ago by
QX
▴ 70
3
votes
6
replies
603
views
Is there a proper way to choose bins in barplot
visualization
plot
bar
3 months ago by
QX
▴ 70
2
votes
2
replies
367
views
statistical testing for MS/MS proteomics bulk samples
DEG
proteomics
updated 5 months ago by
ATpoint
87k • written 5 months ago by
QX
▴ 70
2
votes
4
replies
694
views
coordinate vs contributions for the variables in PCA using FactoMineR
PCA
updated 5 months ago by
Bastien Hervé
6.2k • written 5 months ago by
QX
▴ 70
3
votes
6
replies
969
views
PCA for count data
PCA
6 months ago by
QX
▴ 70
0
votes
3
replies
724
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DEseq2 with different designs matrix
DEseq2
7 months ago by
QX
▴ 70
0
votes
0
replies
250
views
Different position for same gene using annotatePeak from ChIPseeker
ChIPseeker
ATACseq
7 months ago by
QX
▴ 70
0
votes
0
replies
240
views
plotHeatmap from deeptools explain
atac-seq
7 months ago by
QX
▴ 70
5
votes
4
replies
1.4k
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difference between macs2 callpeak using bam and bed file
macs2
atac-seq
8 months ago by
QX
▴ 70
2
votes
5
replies
847
views
call peak for all replicates in all conditions using macs2
macs2
ATACseq
updated 8 months ago by
zau saa
▴ 150 • written 8 months ago by
QX
▴ 70
1
vote
4
replies
713
views
trimming 151bp to shorter k-mer in ATAC-seq analysis
ATAC-seq
8 months ago by
QX
▴ 70
3
votes
6
replies
1.3k
views
which bed file should be used for deeptools computeMatrix
atac-seq
deeptools
updated 8 months ago by
Ming Tommy Tang
★ 4.6k • written 8 months ago by
QX
▴ 70
0
votes
0
replies
296
views
reference-point setting from computeMatrix
ATACseq
8 months ago by
QX
▴ 70
0
votes
0
replies
253
views
which distance used for kmeans in deeptools plotHeatmap
atac
deeptools
8 months ago by
QX
▴ 70
1
vote
1
reply
509
views
merge replicate for bigWig files from macs2 peak calling
ATAC-seq
updated 8 months ago by
ATpoint
87k • written 8 months ago by
QX
▴ 70
4
votes
4
replies
724
views
MACS2 for multiple conditions in ATACseq analysis
mac2
8 months ago by
QX
▴ 70
4
votes
4
replies
908
views
Increase the memory and core usage of R
R
updated 8 months ago by
Mensur Dlakic
★ 29k • written 8 months ago by
QX
▴ 70
3
votes
2
replies
680
views
is that statistical correct to use DEseq2 for proteomics data
proteomics
DEseq2
updated 8 months ago by
ATpoint
87k • written 8 months ago by
QX
▴ 70
4
votes
8
replies
1.1k
views
featureCounts output
macs2
featureCounts
updated 8 months ago by
rfran010
★ 1.4k • written 9 months ago by
QX
▴ 70
2
votes
6
replies
975
views
input for gatk VariantAnnotator --dbsnp
VariantAnnotator
gatk
updated 9 months ago by
GenoMax
150k • written 9 months ago by
QX
▴ 70
5
votes
5
replies
1.2k
views
best way to submit hpc job using snakemake
snakemake
9 months ago by
QX
▴ 70
1
vote
3
replies
553
views
snakemake config file with path
snakemake
updated 9 months ago by
pbioinf
▴ 140 • written 9 months ago by
QX
▴ 70
0
votes
2
replies
479
views
how to colorize snakemake editing text
snakemake
updated 9 months ago by
Michael
55k • written 9 months ago by
QX
▴ 70
3
votes
5
replies
1.3k
views
Calling variants/SNP for single-cell RNA-seq data
SNP
scRNAseq
updated 7 months ago by
yura.grabovska
▴ 760 • written 9 months ago by
QX
▴ 70
2
votes
1
reply
429
views
Split the fastqc file base on barcode
fastq
updated 10 months ago by
GenoMax
150k • written 10 months ago by
QX
▴ 70
2
votes
3
replies
734
views
bash for merging bam files by samtools
samtools
updated 10 months ago by
GenoMax
150k • written 10 months ago by
QX
▴ 70
5
votes
3
replies
929
views
chIP-seq vs ATACseq analysis
ATACseq
10 months ago by
QX
▴ 70
0
votes
1
reply
890
views
invalid class “Assay” object issue from Seurat
seurat
updated 10 months ago by
bk11
★ 3.1k • written 10 months ago by
QX
▴ 70
8
votes
3
replies
980
views
conda-like env for R
R
conda
updated 10 months ago by
dthorbur
★ 2.9k • written 10 months ago by
QX
▴ 70
2
votes
1
reply
450
views
Trimming from 151bp to 65bp
sequencing
data
updated 10 months ago by
GenoMax
150k • written 10 months ago by
QX
▴ 70
5
votes
11
replies
1.2k
views
6 follow
Asking for parallel jobs setting on HPC when analyzing sequencing data
HPC
parallel
updated 10 months ago by
Darked89
4.7k • written 10 months ago by
QX
▴ 70
4
votes
2
replies
818
views
cannot conda install macs3 on linux
atac
macs3
10 months ago by
QX
▴ 70
3
votes
5
replies
999
views
How to scrape BioMart data from https://sorfs.ugent.be/ website
BioMart
updated 10 months ago by
Pierre Lindenbaum
166k • written 11 months ago by
QX
▴ 70
3
votes
3
replies
758
views
Unexpected read length from NGS
NGS
Illumina
11 months ago by
QX
▴ 70
3
votes
4
replies
854
views
Why gatk VariantAnnotator required bam and coverage files
gatk
VariantAnnotator
11 months ago by
QX
▴ 70
0
votes
0
replies
259
views
Add geno header to VariantAnnotation objects
nichenet
scRNA-seq
12 months ago by
QX
▴ 70
0
votes
0
replies
243
views
NicheNet cell-cell communication analysis outcome
nichenet
scRNA-seq
12 months ago by
QX
▴ 70
2
votes
3
replies
936
views
Annotate genes from gtf file to vcf file
gtf
genomics
vcf
13 months ago by
QX
▴ 70
0
votes
1
reply
414
views
Adding gene to GRange objects with single base
GRanges
genomics
updated 13 months ago by
ATpoint
87k • written 13 months ago by
QX
▴ 70
0
votes
1
reply
382
views
SNP and Genes position matching dataframes in R
R
dataframe
updated 13 months ago by
dthorbur
★ 2.9k • written 13 months ago by
QX
▴ 70
2
votes
1
reply
356
views
Computing the neighborhood graph in single cell pipeline
single-cell
knn
updated 13 months ago by
ATpoint
87k • written 13 months ago by
QX
▴ 70
0
votes
2
replies
693
views
Visualize and access gvcf/vcf files
genomics
vcf
updated 9 months ago by
venkat
▴ 10 • written 13 months ago by
QX
▴ 70
0
votes
2
replies
1.5k
views
problem with importing mtx file in scanpy
scanpy
scRNAseq
15 months ago by
QX
▴ 70
1
vote
1
reply
617
views
Variant calling using HaplotypeCaller does not show #FILTER information
Variant-calling
GATK
HaplotypeCaller
WGS
updated 16 months ago by
Ram
45k • written 16 months ago by
QX
▴ 70
5
votes
2
replies
724
views
Execute R command on specific termimal
R
updated 16 months ago by
Ram
45k • written 16 months ago by
QX
▴ 70
3
votes
4
replies
1.5k
views
Downstream analysis with DEseq2 normalization
DEseq2
integration
17 months ago by
QX
▴ 70
4
votes
2
replies
786
views
Normalization function in DEseq2
DEseq2
17 months ago by
QX
▴ 70
0
votes
0
replies
394
views
What is the difference between CNV binning and aligning to gene?
CNV
transcriptomics
17 months ago by
QX
▴ 70
2
votes
1
reply
635
views
Integrate proteomics and scRNA-seq datasets
scRNA-seq
omics
protemics
updated 20 months ago by
bk11
★ 3.1k • written 20 months ago by
QX
▴ 70
3
votes
4
replies
1.0k
views
Integrate transcriptomics and CNV
CNV
omics
20 months ago by
QX
▴ 70
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