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14
votes
6
replies
3.4k
views
Is there a reasonable way to rank peaks that are common between replicates?
ChIP-Seq
updated 12 months ago by 89k • written 4.9 years ago by ▴ 390
1
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1
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3.4k
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Comment: A: Is there a reasonable way to rank peaks that are common between replicates?
4.9 years ago by Aspire ▴ 390
1
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0
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4.8k
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Comment: C: Handling replicates in Chip-seq
4.9 years ago by Aspire ▴ 390
1
vote
2
replies
1.7k
views
What could be the cause of different levels of binding in ChIP-Seq Input samples?
ChIP-Seq ngsplot
updated 5.0 years ago by 9.0k • written 5.0 years ago by ▴ 390
0
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0
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1.8k
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Comment: C: Should the number of significantly DE genes rise with the number of SVs estimate
5.0 years ago by Aspire ▴ 390
0
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4
replies
1.8k
views
Should the number of significantly DE genes rise with the number of SVs estimated (SVA package)?
sva
5.0 years ago by Aspire ▴ 390
0
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1
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1.8k
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Comment: C: Should the number of significantly DE genes rise with the number of SVs estimate
5.0 years ago by Aspire ▴ 390
0
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0
replies
1.7k
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Comment: C: Weird results in TopHat2 paired-end alignment
5.0 years ago by Aspire ▴ 390
0
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1
reply
1.8k
views
Comment: C: Providing R1,R2 to macs2
5.0 years ago by Aspire ▴ 390
0
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0
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1.8k
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Comment: C: Providing R1,R2 to macs2
5.0 years ago by Aspire ▴ 390
0
votes
1
reply
1.8k
views
Comment: C: Providing R1,R2 to macs2
5.0 years ago by Aspire ▴ 390
2
votes
6
replies
1.8k
views
Providing R1,R2 to macs2
ChIP-Seq macs2
5.0 years ago by Aspire ▴ 390
1
vote
1
reply
1.2k
views
Clarifying the meaning of Bowtie2's default alignment mode (noob question)
bowtie2
updated 5.0 years ago by 103k • written 5.0 years ago by ▴ 390
0
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0
replies
1.7k
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Comment: C: Weird results in TopHat2 paired-end alignment
5.0 years ago by Aspire ▴ 390
2
votes
0
replies
2.6k
views
Answer: A: TLEN value is negative for both paired reads
5.1 years ago by Aspire ▴ 390
0
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0
replies
1.0k
views
Comment: C: separating dataset by a specific character
5.1 years ago by Aspire ▴ 390
5
votes
10
replies
5.8k
views
6 follow
RNA-SEQ where only a subset of genes is of interest
RNA-Seq deseq
updated 5 weeks ago by • 0 • written 5.1 years ago by ▴ 390
0
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1
reply
5.8k
views
Comment: C: RNA-SEQ where only a subset of genes is of interest
5.1 years ago by Aspire ▴ 390
0
votes
0
replies
1.4k
views
Comment: C: generate .tab file for snippy with filenames & paths
5.1 years ago by Aspire ▴ 390
0
votes
0
replies
1.4k
views
Answer: A: Tophat alignment and -g parameter
5.1 years ago by Aspire ▴ 390
0
votes
3
replies
1.4k
views
Tophat alignment and -g parameter
RNA-Seq tophat
5.1 years ago by Aspire ▴ 390
0
votes
0
replies
1.4k
views
Comment: C: Tophat alignment and -g parameter
5.1 years ago by Aspire ▴ 390
3
votes
1
reply
1.0k
views
Htseq unable to process last read
RNA-Seq htseq-count
5.2 years ago by Aspire ▴ 390
2
votes
0
replies
1.0k
views
Answer: A: Htseq unable to process last read
5.2 years ago by Aspire ▴ 390
0
votes
0
replies
2.6k
views
Answer: A: Why sequence length disturbution failed after adapter trimming: fastqc?
5.2 years ago by Aspire ▴ 390
1
vote
2
replies
4.0k
views
Comment: C: Is there any available code for DeSeq2 method in R?
5.2 years ago by Aspire ▴ 390
0
votes
0
replies
1.5k
views
Comment: C: How to choose the right model?
5.2 years ago by Aspire ▴ 390
0
votes
1
reply
1.5k
views
Comment: C: How to choose the right model?
5.2 years ago by Aspire ▴ 390
0
votes
1
reply
1.5k
views
Comment: C: How to choose the right model?
5.2 years ago by Aspire ▴ 390
2
votes
6
replies
1.5k
views
How to choose the right model?
deseq2 RNA-Seq glm
updated 5.2 years ago by ★ 1.9k • written 5.2 years ago by ▴ 390
0
votes
0
replies
4.9k
views
Comment: C: Paired end sequencing in case of a short biological insert
5.2 years ago by Aspire ▴ 390
0
votes
1
reply
1.5k
views
Comment: C: Usefulness of paired-end sequencing (noob question)
5.2 years ago by Aspire ▴ 390
0
votes
4
replies
1.5k
views
Usefulness of paired-end sequencing (noob question)
RNA-Seq paired-end tophat
5.2 years ago by Aspire ▴ 390
0
votes
0
replies
4.9k
views
Comment: C: Paired end sequencing in case of a short biological insert
5.2 years ago by Aspire ▴ 390
5
votes
9
replies
4.9k
views
Paired end sequencing in case of a short biological insert
paired-end RNA-Seq
5.2 years ago by Aspire ▴ 390
0
votes
1
reply
4.9k
views
Comment: C: Paired end sequencing in case of a short biological insert
5.2 years ago by Aspire ▴ 390
7
votes
1
reply
2.2k
views
What is the importance of the rlog function (DESeq2) for downstream analysis?
deseq2
updated 5.4 years ago by 22k • written 5.4 years ago by ▴ 390
0
votes
1
reply
1.9k
views
Comment: C: Requirement of constant variance in limma-voom
5.4 years ago by Aspire ▴ 390
0
votes
1
reply
1.9k
views
Comment: C: Requirement of constant variance in limma-voom
5.4 years ago by Aspire ▴ 390
5
votes
5
replies
1.9k
views
Requirement of constant variance in limma-voom
voom
updated 5.4 years ago by 22k • written 5.4 years ago by ▴ 390
0
votes
4
replies
2.2k
views
What is the right way to convert probe names from Brainarray Custom CDF to Ensembl ?
custom-cdf brainarray affymetrix microarray
5.4 years ago by Aspire ▴ 390
0
votes
0
replies
2.2k
views
Answer: A: What is the right way to convert probe names from Brainarray Custom CDF to Ensem
5.4 years ago by Aspire ▴ 390
0
votes
0
replies
2.4k
views
Comment: C: What could be a reason for peaks called via Macs2 not appearing as real peaks in
5.4 years ago by Aspire ▴ 390
4
votes
3
replies
2.4k
views
What could be a reason for peaks called via Macs2 not appearing as real peaks in IGV?
macs2 igv
updated 5.4 years ago by 89k • written 5.4 years ago by ▴ 390
0
votes
0
replies
2.4k
views
Comment: C: Finding the cause for corrupt ChIP-Seq data
5.4 years ago by Aspire ▴ 390
0
votes
1
reply
2.2k
views
Comment: C: What is the right way to convert probe names from Brainarray Custom CDF to Ensem
5.4 years ago by Aspire ▴ 390
0
votes
0
replies
13k
views
Comment: C: R providing row numbers instead row names with read.csv?
5.4 years ago by Aspire ▴ 390
1
vote
1
reply
1.2k
views
Should Affymetrix probe annotation include only specific gene biotypes?
microarrays affymetrix ensembl
updated 5.4 years ago by 89k • written 5.4 years ago by ▴ 390
0
votes
1
reply
13k
views
Comment: C: R providing row numbers instead row names with read.csv?
5.4 years ago by Aspire ▴ 390
0
votes
0
replies
1.4k
views
Why pileup values of MACS2 output have decimal values?
macs2
5.6 years ago by Aspire ▴ 390
156 results • Page 3 of 4
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