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7
votes
5
replies
3.6k
views
What is chr EBV in human sam file?
SAM Bowtie2
written 6.3 years ago by ▴ 550
4
votes
9
replies
6.6k
views
ValueError: invalid literal for int() with base 10: 'start' computeMatrix of deeptools
ChIP-Seq Deeptools
updated 2.3 years ago by • 0 • written 7.4 years ago by ▴ 550
2
votes
3
replies
6.4k
views
STAR alignment error: Genome_genomeGenerate.cpp:208:genomeGenerate: exiting because of *OUTPUT FILE* error: could not create output file ./GenomeDir/
RNA-Seq STAR
updated 2.5 years ago by • 0 • written 6.4 years ago by ▴ 550
0
votes
1
reply
2.5k
views
findOverlapsOfPeaks in ChIPpeakAnno R package
R ChIP-Seq
updated 2.7 years ago by ▴ 10 • written 7.6 years ago by ▴ 550
0
votes
0
replies
2.0k
views
Comment: Comment: MACS2: What is in 4th column of treat_pvalue.bdg/treat_qvalue.bdg files?
3.0 years ago by salamandra ▴ 550
5
votes
6
replies
27k
views
Error: Encountered internal Bowtie 2 exception (#1) (ERR): bowtie2-align exited with value 1
ChIP-Seq
updated 3.6 years ago by ▴ 20 • written 7.5 years ago by ▴ 550
0
votes
1
reply
2.7k
views
findOverlapsOfPeaks() of package ChIPpeakAnno in R
R
updated 3.7 years ago by ▴ 10 • written 7.6 years ago by ▴ 550
1
vote
3
replies
2.0k
views
Can we compare peaks of different transcription factors when they were obtained by different criteria (IDR/FDR)?
ChIP-Seq IDR RNA-Seq
updated 3.7 years ago by 20 • written 6.3 years ago by ▴ 550
0
votes
1
reply
2.8k
views
Comment: C: Affymetrix: probeset or transcript cluster?
4.2 years ago by salamandra ▴ 550
0
votes
1
reply
2.8k
views
Comment: C: Affymetrix: probeset or transcript cluster?
4.2 years ago by salamandra ▴ 550
0
votes
1
reply
2.8k
views
Comment: C: Affymetrix: probeset or transcript cluster?
4.2 years ago by salamandra ▴ 550
0
votes
1
reply
2.8k
views
Comment: C: Affymetrix: probeset or transcript cluster?
4.2 years ago by salamandra ▴ 550
5
votes
8
replies
2.8k
views
Affymetrix: probeset or transcript cluster?
Affymetrix microarray oligo R
4.2 years ago by salamandra ▴ 550
2
votes
1
reply
1.3k
views
Summarize by gene for agilent microarray data - one color
R microarray limma
updated 4.3 years ago by 88k • written 4.3 years ago by ▴ 550
2
votes
0
replies
13k
views
Comment: C: Does Gene length corrected TMM [GeTMM] violate any assumptions of TMM normalizat
4.5 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
0
replies
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
7.1k
views
Comment: C: Human Exon array probeset to gene-level expression
5.1 years ago by salamandra ▴ 550
0
votes
1
reply
8.0k
views
Comment: C: Cannot read Illumina data (.bgx and .txt format) in R for microanalysis
5.1 years ago by salamandra ▴ 550
0
votes
0
replies
2.1k
views
Comment: C: Error when reading microarray idat files from illumina
5.1 years ago by salamandra ▴ 550
0
votes
2
replies
2.1k
views
Error when reading microarray idat files from illumina
microarray illumina illuminaio R limma
updated 5.1 years ago by 35k • written 5.1 years ago by ▴ 550
0
votes
1
reply
3.6k
views
Comment: C: Biopython installation/set path fails in conda env
5.3 years ago by salamandra ▴ 550
1
vote
5
replies
3.6k
views
Biopython installation/set path fails in conda env
Biopython
5.3 years ago by salamandra ▴ 550
0
votes
1
reply
3.6k
views
Comment: C: Biopython installation/set path fails in conda env
5.3 years ago by salamandra ▴ 550
1
vote
1
reply
1.7k
views
How to generate a scatter plot of duplication level vs log2reads per kilobase for RNA-seq? (seqmonk)
seqmonk Duplication level RNA-Seq
updated 5.4 years ago by • 0 • written 6.4 years ago by ▴ 550
9
votes
4
replies
3.4k
views
mRNA-seq quality report (fastQC): Does it mean samples have adapters and should remove duplicates?
RNA-Seq fastqc duplicates adapters
updated 5.5 years ago by 20 • written 6.4 years ago by ▴ 550
0
votes
2
replies
3.3k
views
Error in match.arg in boxplot - oligo package
R oligo
updated 5.5 years ago by ★ 1.6k • written 7.6 years ago by ▴ 550
14
votes
4
replies
6.8k
views
BiomaRt: archive version of ensembl not working
biomart r
updated 5.9 years ago by ★ 2.1k • written 5.9 years ago by ▴ 550
0
votes
0
replies
6.8k
views
Comment: C: BiomaRt: archive version of ensembl not working
5.9 years ago by salamandra ▴ 550
0
votes
1
reply
9.7k
views
Comment: C: If we use MACS2 do we need to remove duplicate sequences with samtools rmdup ?
5.9 years ago by salamandra ▴ 550
0
votes
1
reply
9.7k
views
Comment: C: If we use MACS2 do we need to remove duplicate sequences with samtools rmdup ?
5.9 years ago by salamandra ▴ 550
0
votes
1
reply
9.7k
views
Comment: C: If we use MACS2 do we need to remove duplicate sequences with samtools rmdup ?
5.9 years ago by salamandra ▴ 550
0
votes
1
reply
8.8k
views
Comment: C: DESeq2 design formula: how to use the opposite interaction term?
5.9 years ago by salamandra ▴ 550
0
votes
0
replies
17k
views
Comment: C: CPM read count normalization: what does it mean between replicates of same group
5.9 years ago by salamandra ▴ 550
9
votes
2
replies
17k
views
CPM read count normalization: what does it mean between replicates of same group and within same replicate?
RNA-Seq Read count normalization
updated 5.9 years ago by 85k • written 5.9 years ago by ▴ 550
2
votes
1
reply
8.8k
views
Comment: C: DESeq2 design formula: how to use the opposite interaction term?
5.9 years ago by salamandra ▴ 550
0
votes
1
reply
8.8k
views
Comment: C: DESeq2 design formula: how to use the opposite interaction term?
6.0 years ago by salamandra ▴ 550
20
votes
8
replies
8.8k
views
DESeq2 design formula: how to use the opposite interaction term?
deseq2 RNA-Seq
updated 6.0 years ago by 88k • written 6.0 years ago by ▴ 550
0
votes
1
reply
15k
views
Comment: C: BioMart: connection fails
6.0 years ago by salamandra ▴ 550
0
votes
0
replies
15k
views
Comment: C: BioMart: connection fails
6.1 years ago by salamandra ▴ 550
0
votes
1
reply
15k
views
Comment: A: BioMart: connection fails
6.1 years ago by salamandra ▴ 550
16
votes
12
replies
15k
views
BioMart: connection fails
BioMart
6.1 years ago by salamandra ▴ 550
8
votes
9
replies
6.1k
views
How does MACS algorithm work on ATAC-seq data if there is no control sample and no model estimation?
ChIP-Seq MACS
updated 6.1 years ago by • 0 • written 7.1 years ago by ▴ 550
5
votes
2
replies
2.2k
views
Difference between affy_hg_u133a and with_affy_hg_u133a
R Biomart
updated 6.2 years ago by 20 • written 7.6 years ago by ▴ 550
0
votes
0
replies
2.9k
views
Comment: C: Tool that can split genes into groups with similar expression pattern overtime
6.3 years ago by salamandra ▴ 550
4
votes
8
replies
2.9k
views
Tool that can split genes into groups with similar expression pattern overtime and plot them?
RNA-Seq clustering
updated 6.3 years ago by ▴ 60 • written 6.3 years ago by ▴ 550
211 results • Page 1 of 5
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