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Comment: Comment: What are the necessary and sufficient conditions for applying a multiple hypothe
3.1 years ago by Aspire ▴ 330
5
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8
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2.1k
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What are the necessary and sufficient conditions for applying a multiple hypothesis correction?
multiple-comparisons statistics
updated 3.0 years ago by 22k • written 3.1 years ago by ▴ 330
0
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1
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834
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Comment: C: How can the assumption of a broad/narrow peak be checked?
3.1 years ago by Aspire ▴ 330
3
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3
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834
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How can the assumption of a broad/narrow peak be checked?
macs2 ChIP-Seq
3.1 years ago by Aspire ▴ 330
0
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2
replies
871
views
On understanding the axis of a PCA plot
pca
updated 3.2 years ago by ★ 4.7k • written 3.2 years ago by ▴ 330
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1
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2.6k
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Comment: C: A question on the interpretation of a PCA plot
3.2 years ago by Aspire ▴ 330
0
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0
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1.4k
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Basic questions about Ngsplot heatmaps
ngsplot heatmap
3.2 years ago by Aspire ▴ 330
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1
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3.8k
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Comment: C: Are MACS2's summit or DiffBind's summit options are recommended for histone mark
3.2 years ago by Aspire ▴ 330
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0
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1.3k
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Comment: C: Why does it make sense to use gene symbols instead of gene ids in enrichment sof
3.3 years ago by Aspire ▴ 330
1
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0
replies
1.8k
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Interaction terms and main effects in DESeq2
RNA-Seq DESeq2
updated 3.3 years ago by 20 • written 4.8 years ago by ▴ 330
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0
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2.4k
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Comment: C: Does DiffBind correctly designate peaks with very small fold-change to be signif
3.3 years ago by Aspire ▴ 330
0
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2
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2.4k
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Comment: C: Does DiffBind correctly designate peaks with very small fold-change to be signif
3.3 years ago by Aspire ▴ 330
0
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1
reply
2.4k
views
Comment: C: Does DiffBind correctly designate peaks with very small fold-change to be signif
3.3 years ago by Aspire ▴ 330
0
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1
reply
2.4k
views
Comment: C: Does DiffBind correctly designate peaks with very small fold-change to be signif
3.3 years ago by Aspire ▴ 330
0
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3
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1.1k
views
Weird results in TopHat2 paired-end alignment
RNA-Seq TopHat2 paired-end
updated 3.3 years ago by 20 • written 3.6 years ago by ▴ 330
0
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1
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1.7k
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Comment: C: Very generally speaking, what are valid criteria to decide that a sample is an o
3.3 years ago by Aspire ▴ 330
0
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0
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1.7k
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Comment: C: Very generally speaking, what are valid criteria to decide that a sample is an o
3.3 years ago by Aspire ▴ 330
6
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5
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1.7k
views
Forum: Very generally speaking, what are valid criteria to decide that a sample is an outlier?
outliers
updated 11 months ago by 43k • written 3.3 years ago by ▴ 330
0
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0
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7.8k
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Comment: C: How do I use Diffbind as a complete beginner?
3.3 years ago by Aspire ▴ 330
0
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0
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2.0k
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Comment: C: Is there a reasonable way to rank peaks that are common between replicates?
3.3 years ago by Aspire ▴ 330
7
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4
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1.2k
views
Forum: Specific question on torturing the data until it confesses
ipa gene-set-enrichment statistics
updated 11 months ago by 43k • written 3.4 years ago by ▴ 330
0
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1
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3.8k
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Comment: C: ChIP-seq or Cut and Run Differential Binding Analysis
3.4 years ago by Aspire ▴ 330
0
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0
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3.8k
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Comment: C: ChIP-seq or Cut and Run Differential Binding Analysis
3.4 years ago by Aspire ▴ 330
1
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1
reply
1.2k
views
Answer: A: Specific question on torturing the data until it confesses
3.4 years ago by Aspire ▴ 330
2
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6
replies
2.6k
views
A question on the interpretation of a PCA plot
pca
updated 3.4 years ago by 13k • written 3.4 years ago by ▴ 330
5
votes
3
replies
1.3k
views
Why does it make sense to use gene symbols instead of gene ids in enrichment software?
enrichr gene
updated 3.4 years ago by 13k • written 3.4 years ago by ▴ 330
0
votes
0
replies
592
views
How to understand the output of plotRap function in ChIPQC package?
ChIP-Seq
3.4 years ago by Aspire ▴ 330
0
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0
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2.0k
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Comment: C: Is there a reasonable way to rank peaks that are common between replicates?
3.4 years ago by Aspire ▴ 330
11
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7
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2.0k
views
Is there a reasonable way to rank peaks that are common between replicates?
ChIP-Seq
updated 3.4 years ago by ★ 3.5k • written 3.4 years ago by ▴ 330
1
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1
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2.0k
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Comment: A: Is there a reasonable way to rank peaks that are common between replicates?
3.4 years ago by Aspire ▴ 330
0
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0
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3.4k
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Comment: C: Handling replicates in Chip-seq
3.4 years ago by Aspire ▴ 330
1
vote
2
replies
1.2k
views
What could be the cause of different levels of binding in ChIP-Seq Input samples?
ChIP-Seq ngsplot
updated 3.5 years ago by 8.7k • written 3.5 years ago by ▴ 330
0
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0
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1.2k
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Comment: C: Should the number of significantly DE genes rise with the number of SVs estimate
3.5 years ago by Aspire ▴ 330
0
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4
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1.2k
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Should the number of significantly DE genes rise with the number of SVs estimated (SVA package)?
sva
3.5 years ago by Aspire ▴ 330
0
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1
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1.2k
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Comment: C: Should the number of significantly DE genes rise with the number of SVs estimate
3.5 years ago by Aspire ▴ 330
0
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0
replies
1.1k
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Comment: C: Weird results in TopHat2 paired-end alignment
3.5 years ago by Aspire ▴ 330
0
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1
reply
1.2k
views
Comment: C: Providing R1,R2 to macs2
3.5 years ago by Aspire ▴ 330
0
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0
replies
1.2k
views
Comment: C: Providing R1,R2 to macs2
3.5 years ago by Aspire ▴ 330
0
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1
reply
1.2k
views
Comment: C: Providing R1,R2 to macs2
3.5 years ago by Aspire ▴ 330
2
votes
6
replies
1.2k
views
Providing R1,R2 to macs2
ChIP-Seq macs2
3.5 years ago by Aspire ▴ 330
1
vote
1
reply
798
views
Clarifying the meaning of Bowtie2's default alignment mode (noob question)
bowtie2
updated 3.5 years ago by 100k • written 3.5 years ago by ▴ 330
0
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0
replies
1.1k
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Comment: C: Weird results in TopHat2 paired-end alignment
3.6 years ago by Aspire ▴ 330
2
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0
replies
1.8k
views
Answer: A: TLEN value is negative for both paired reads
3.6 years ago by Aspire ▴ 330
0
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0
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627
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Comment: C: separating dataset by a specific character
3.6 years ago by Aspire ▴ 330
4
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5
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1.5k
views
RNA-SEQ where only a subset of genes is of interest
RNA-Seq deseq
updated 3.6 years ago by 3.6k • written 3.6 years ago by ▴ 330
0
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1
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1.5k
views
Comment: C: RNA-SEQ where only a subset of genes is of interest
3.6 years ago by Aspire ▴ 330
0
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0
replies
1.1k
views
Comment: C: generate .tab file for snippy with filenames & paths
3.6 years ago by Aspire ▴ 330
0
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0
replies
897
views
Answer: A: Tophat alignment and -g parameter
3.6 years ago by Aspire ▴ 330
0
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3
replies
897
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Tophat alignment and -g parameter
RNA-Seq tophat
3.6 years ago by Aspire ▴ 330
0
votes
0
replies
897
views
Comment: C: Tophat alignment and -g parameter
3.6 years ago by Aspire ▴ 330
134 results • Page 2 of 3
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