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0
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0
replies
416
views
Comment:
Comment: Sorted bam files have zero content
3 months ago by
mgranada3
▴ 30
0
votes
0
replies
416
views
Comment:
Comment: Sorted bam files have zero content
3 months ago by
mgranada3
▴ 30
2
votes
4
replies
416
views
Sorted bam files have zero content
bam
picard
DNA-seq
sorted
updated 3 months ago by
Michael
54k • written 3 months ago by
mgranada3
▴ 30
0
votes
1
reply
389
views
Comment:
Comment: Does samtools output a new .bam file after I add a read group to it?
3 months ago by
mgranada3
▴ 30
1
vote
3
replies
389
views
Does samtools output a new .bam file after I add a read group to it?
samtools
readgroup
gatk
updated 3 months ago by
Pierre Lindenbaum
161k • written 3 months ago by
mgranada3
▴ 30
0
votes
0
replies
536
views
Comment:
Comment: Bwa-mem2 indexing not working down stream
4 months ago by
mgranada3
▴ 30
0
votes
2
replies
536
views
Bwa-mem2 indexing not working down stream
bwa-mem2
index
fasta
4 months ago by
mgranada3
▴ 30
0
votes
1
reply
341
views
Sorted bam files are empty after sorting them from bam
bam
dna
updated 4 months ago by
Ram
43k • written 4 months ago by
mgranada3
▴ 30
0
votes
0
replies
372
views
Survival analysis in R keeps censoring figure with no censored data.
R
survival-analysis
censor
updated 5 months ago by
Ram
43k • written 5 months ago by
mgranada3
▴ 30
1
vote
2
replies
1.2k
views
What is an appropriate cut off for p-values and log fold changes during the analysis of a time course global gene expression experiment using DESeq2?
LFC
Deseq2
p-value
updated 7 months ago by
kalavattam
▴ 190 • written 7 months ago by
mgranada3
▴ 30
1
vote
2
replies
981
views
How to choose BWA-MEM2 settings
BWA-MEM2
DNA-seq
bash
updated 8 months ago by
Ram
43k • written 8 months ago by
mgranada3
▴ 30
0
votes
1
reply
855
views
Comment:
Comment: How do I add row names to pheatmap() when I am using a pre-normalized matrix?
11 months ago by
mgranada3
▴ 30
0
votes
1
reply
855
views
Comment:
Comment: How do I add row names to pheatmap() when I am using a pre-normalized matrix?
11 months ago by
mgranada3
▴ 30
0
votes
4
replies
855
views
How do I add row names to pheatmap() when I am using a pre-normalized matrix?
pheatmap
heatmap
rna-seq
updated 10 months ago by
Trivas
★ 1.7k • written 11 months ago by
mgranada3
▴ 30
1
vote
5
replies
1.5k
views
6 follow
How can I make all my PCA plots the same shape using ggplots?
deseq2
axis
ggplots
updated 12 months ago by
foejvs546
▴ 10 • written 12 months ago by
mgranada3
▴ 30
0
votes
0
replies
2.4k
views
Comment:
Comment: In DESeq2, using plotPCA how do I go about extracting genes making up PC1 and PC
12 months ago by
mgranada3
▴ 30
0
votes
1
reply
2.4k
views
Comment:
Comment: In DESeq2, using plotPCA how do I go about extracting genes making up PC1 and PC
12 months ago by
mgranada3
▴ 30
6
votes
4
replies
2.4k
views
In DESeq2, using plotPCA how do I go about extracting genes making up PC1 and PC2?
pc1
deseq2
plotpca
pc2
12 months ago by
mgranada3
▴ 30
2
votes
2
replies
775
views
How do I extract gene names from different portions of my heatmap?
pheatmap
heatmap
deseq2
updated 19 months ago by
Friederike
8.9k • written 19 months ago by
mgranada3
▴ 30
0
votes
0
replies
8.2k
views
Comment:
Comment: How to export rld (rlog) or vsd values from DESeq2?
19 months ago by
mgranada3
▴ 30
0
votes
0
replies
2.4k
views
Comment:
Comment: StringTie FPKM output to DESeq2 input
20 months ago by
mgranada3
▴ 30
0
votes
1
reply
1.0k
views
Comment:
Comment: What are the values shown on DESEQ2 heatmap legend?
20 months ago by
mgranada3
▴ 30
0
votes
3
replies
1.0k
views
What are the values shown on DESEQ2 heatmap legend?
heatmap
RNA-seq
deseq2
R
pheatmap
updated 20 months ago by
karl.stamm
4.1k • written 20 months ago by
mgranada3
▴ 30
0
votes
1
reply
1.6k
views
Comment:
Comment: How do you normalize a heat map to the control?
21 months ago by
mgranada3
▴ 30
1
vote
3
replies
1.6k
views
How do you normalize a heat map to the control?
heatmap
RNA-seq
DESeq2
R
pheatmap
20 months ago by
mgranada3
▴ 30
3
votes
3
replies
859
views
When looking at a heatmap created by DESeq2, how can I find what genes are in specific regions of interest?
pheatmap
deseq2
heatmap
rnaseq
R
updated 2.1 years ago by
ATpoint
81k • written 2.1 years ago by
mgranada3
▴ 30
0
votes
1
reply
2.2k
views
Comment:
Comment: When making a heat map with normalized data, should you still see the control da
2.1 years ago by
mgranada3
▴ 30
0
votes
3
replies
2.2k
views
When making a heat map with normalized data, should you still see the control data?
RNA-seq
pheat
R
updated 2.1 years ago by
gglim
▴ 140 • written 2.2 years ago by
mgranada3
▴ 30
0
votes
0
replies
1.1k
views
Comment:
Comment: featureCounts output has letters and +/- sign
2.3 years ago by
mgranada3
▴ 30
0
votes
4
replies
1.1k
views
featureCounts output has letters and +/- sign
rnaseq
featurecounts
deseq2
2.3 years ago by
mgranada3
▴ 30
0
votes
1
reply
1.1k
views
Comment:
Comment: featureCounts output has letters and +/- sign
2.3 years ago by
mgranada3
▴ 30
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