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2
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920
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Pathways visualization as network
cytoscape Pathways
updated 3.0 years ago by ▴ 10 • written 3.0 years ago by ▴ 190
8
votes
9
replies
3.6k
views
Can we combine adjacent peaks in ATAC-Seq data
sequencing
updated 2.6 years ago by 85k • written 5.4 years ago by ▴ 190
1
vote
1
reply
1.5k
views
Regressing on cell cycle genes in scRNA-Seq
rna-seq single-cell
4.8 years ago by oriolebaltimore ▴ 190
2
votes
0
replies
6.3k
views
Answer: A: Aggregating Gene Expression Across Rows
updated 4.9 years ago by 44k • written 8.9 years ago by ▴ 190
3
votes
4
replies
1.9k
views
Given a bed file with range of peaks, is it possible to identify the summit of the peak
RNA-Seq
updated 5.4 years ago by 36k • written 5.4 years ago by ▴ 190
1
vote
0
replies
1.9k
views
Answer: A: Given a bed file with range of peaks, is it possible to identify the summit of t
5.4 years ago by oriolebaltimore ▴ 190
1
vote
1
reply
3.6k
views
Comment: A: Can we combine adjacent peaks in ATAC-Seq fata
5.4 years ago by oriolebaltimore ▴ 190
2
votes
1
reply
3.6k
views
Answer: A: Can we combine adjacent peaks in ATAC-Seq fata
5.4 years ago by oriolebaltimore ▴ 190
0
votes
2
replies
3.6k
views
Comment: A: Can we combine adjacent peaks in ATAC-Seq fata
5.4 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
2.3k
views
GSVA for mouse scRNA-Seq
scRNA-Seq GSVA
5.5 years ago by oriolebaltimore ▴ 190
5
votes
8
replies
6.1k
views
Identify reads that span intron-exon junctions in RNA-Seq
RNA-Seq
updated 5.7 years ago by ★ 1.5k • written 6.4 years ago by ▴ 190
0
votes
1
reply
24k
views
Answer: A: htseq-counts output merge into one matrix ??
5.8 years ago by oriolebaltimore ▴ 190
2
votes
1
reply
2.5k
views
When to remove duplicates using deduplication in Exome-Seq
TruSeq Exome-Seq DNA-Seq TrueSeq GATK
updated 5.9 years ago by 8.3k • written 5.9 years ago by ▴ 190
0
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0
replies
8.0k
views
Comment: A: Bigwig format and operation
6.0 years ago by oriolebaltimore ▴ 190
8
votes
6
replies
8.0k
views
Bigwig format and operation
Bigwig ChIP-Seq ATAC-Seq BigWig
6.0 years ago by oriolebaltimore ▴ 190
0
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0
replies
8.0k
views
Comment: C: Bigwig format and operation
6.0 years ago by oriolebaltimore ▴ 190
0
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1
reply
5.7k
views
Comment: A: bigWig to bed for regions above/below threshold
6.0 years ago by oriolebaltimore ▴ 190
0
votes
0
replies
8.0k
views
Comment: C: Bigwig format and operation
6.0 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
6.3k
views
Comment: A: How to fix .bam file that was diagnosed as "MISSING_READ_GROUP" by Picard Valida
updated 6.2 years ago by 147k • written 6.2 years ago by ▴ 190
0
votes
0
replies
6.1k
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Comment: A: Identify reads that span intron-exon junctions in RNA-Seq
6.2 years ago by oriolebaltimore ▴ 190
3
votes
1
reply
1.5k
views
TCGA data on cloud
RNA-Seq TCGA cloud computing
updated 6.2 years ago by ▴ 380 • written 6.2 years ago by ▴ 190
0
votes
1
reply
1.2k
views
Map XLOCs in cufflinks assembly GTF to genes
RNA-Seq
6.3 years ago by oriolebaltimore ▴ 190
0
votes
0
replies
7.4k
views
Comment: C: Empty output from MACS2 when using control
6.4 years ago by oriolebaltimore ▴ 190
0
votes
0
replies
6.1k
views
Comment: C: Identify reads that span intron-exon junctions in RNA-Seq
6.4 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
7.4k
views
Answer: A: Empty output from MACS2 when using control
6.4 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
2.3k
views
Comment: A: Mapping and annotating DNA binding regions from ChIP-Seq to nearby gene
6.4 years ago by oriolebaltimore ▴ 190
4
votes
4
replies
2.3k
views
Mapping and annotating DNA binding regions from ChIP-Seq to nearby gene
ChIP-Seq annotation
6.4 years ago by oriolebaltimore ▴ 190
3
votes
1
reply
2.9k
views
sigclust in Verhaak GBM cancer cell 2010
sigclust R
updated 6.7 years ago by ▴ 20 • written 7.9 years ago by ▴ 190
0
votes
2
replies
1.6k
views
Comment: A: HTSeq-count ambiguous results - all transcripts vs. single transcript
6.7 years ago by oriolebaltimore ▴ 190
0
votes
3
replies
1.6k
views
HTSeq-count ambiguous results - all transcripts vs. single transcript
RNA-Seq HTSeq gene
6.7 years ago by oriolebaltimore ▴ 190
5
votes
4
replies
11k
views
ssGSEA on RNA-Seq data from TCGA
RNA-Seq gene
updated 2.3 years ago by 44k • written 8.9 years ago by ▴ 190
4
votes
4
replies
4.7k
views
filter BAM file for reads that map 100% identity
samtools bam CIGAR
updated 2.0 years ago by ▴ 150 • written 7.0 years ago by ▴ 190
0
votes
1
reply
101k
views
Comment: A: Survival analysis of TCGA patients integrating gene expression (RNASeq) data
7.5 years ago by oriolebaltimore ▴ 190
0
votes
0
replies
1.4k
views
how not to enforce FDR cutoff on cuffdiff result
RNA-Seq cuffdiff
7.7 years ago by oriolebaltimore ▴ 190
2
votes
1
reply
3.7k
views
VarScan for tumor only files
sequence alignment next-gen SNP
7.7 years ago by oriolebaltimore ▴ 190
0
votes
2
replies
1.5k
views
how to find if an observed missense SNV is true observation and significant in targeted sequencing of few (5 or less) genes.
next-gen sequencing targeted panels mutations
updated 7.7 years ago by 20 • written 7.8 years ago by ▴ 190
1
vote
0
replies
1.6k
views
Mutation calling rules in TCGA
variant calling
7.8 years ago by oriolebaltimore ▴ 190
0
votes
0
replies
2.1k
views
Given a bam file, obtain read numbers that traverse a specific exon junction
RNA-Seq alternative splicing
7.9 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
8.5k
views
Comment: C: RNA-Seq raw fastq files from TCGA
7.9 years ago by oriolebaltimore ▴ 190
3
votes
4
replies
8.5k
views
RNA-Seq raw fastq files from TCGA
RNA-Seq TCGA fastq
7.9 years ago by oriolebaltimore ▴ 190
0
votes
1
reply
2.7k
views
Cuffmerge and cuffdiff on bam file generated by STAR alignment
alignment cuffdiff star
7.9 years ago by oriolebaltimore ▴ 190
0
votes
2
replies
2.4k
views
Comment: A: RNA-Seq single end 50 bp - will tophat Cufflinks/cuffdiff work for differential
7.9 years ago by oriolebaltimore ▴ 190
1
vote
5
replies
2.4k
views
RNA-Seq single end 50 bp - will tophat Cufflinks/cuffdiff work for differential expression
RNA-Seq cufflinks cuffdiff single-end 50bp
7.9 years ago by oriolebaltimore ▴ 190
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