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2.1k
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Question about HOMER peak annotation to some features. Customize gff3?
ChIP-Seq HOMER annotation
4.7 years ago by nanoide ▴ 120
0
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0
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2.1k
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Answer: A: Question about HOMER peak annotation to some features. Customize gff3?
4.7 years ago by nanoide ▴ 120
0
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1
reply
1.4k
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Comment: C: Recommendations on FAIRE-seq/ATAC-seq optimal coverage for large genome
4.8 years ago by nanoide ▴ 120
3
votes
3
replies
1.4k
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Recommendations on FAIRE-seq/ATAC-seq optimal coverage for large genome
ATAC-seq FAIRE-seq Coverage
4.8 years ago by nanoide ▴ 120
10
votes
9
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2.5k
views
Help interpretating DESeq2 output
Deseq2 Fold-Change RNA-seq
updated 2.0 years ago by 45k • written 4.8 years ago by ▴ 120
1
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0
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2.5k
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Comment: C: Help interpretating DESeq2 output
4.8 years ago by nanoide ▴ 120
0
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1
reply
2.5k
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Comment: C: Help interpretating DESeq2 output
4.8 years ago by nanoide ▴ 120
0
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1
reply
2.5k
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Comment: C: Help interpretating DESeq2 output
4.8 years ago by nanoide ▴ 120
0
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0
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1.0k
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Trying to compile the software seqoutbias with cargo within a conda environment
rust cargo seqoutbias compilation
5.0 years ago by nanoide ▴ 120
0
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0
replies
1.1k
views
Some question on HGAP installation and use
genome assembly HGAP PacBio
5.3 years ago by nanoide ▴ 120
2
votes
3
replies
1.9k
views
How to add a flag to a sam/bam file
ATAC-seq samtools flag filtering
updated 5.5 years ago by 20 • written 5.6 years ago by ▴ 120
0
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1
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1.9k
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Comment: C: How to add a flag to a sam/bam file
5.6 years ago by nanoide ▴ 120
0
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0
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5.9k
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Comment: C: ATAC-seq TSS profile plot interpretation
5.8 years ago by nanoide ▴ 120
0
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1
reply
5.9k
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Comment: C: ATAC-seq TSS profile plot interpretation
5.8 years ago by nanoide ▴ 120
0
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1
reply
5.9k
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Comment: C: ATAC-seq V-plot interpretation
5.8 years ago by nanoide ▴ 120
9
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9
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5.9k
views
ATAC-seq TSS profile plot interpretation
ATAC-seq TSS V-plot
5.8 years ago by nanoide ▴ 120
0
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1
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5.9k
views
Comment: C: ATAC-seq V-plot interpretation
5.8 years ago by nanoide ▴ 120
1
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1
reply
2.7k
views
HaplotypeCallerSpark How to use
snp GATK
updated 6.0 years ago by 5.9k • written 6.0 years ago by ▴ 120
0
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0
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3.9k
views
Comment: C: Merging the output of salmon for RNA-seq counting with paired-end and single-end
6.1 years ago by nanoide ▴ 120
6
votes
4
replies
3.9k
views
Merging the output of salmon for RNA-seq counting with paired-end and single-end reads simultaneously
RNA-Seq single-end paired-end salmon
6.1 years ago by nanoide ▴ 120
4
votes
0
replies
2.8k
views
Peak annotation with HOMER. Statistics with the annStats parameter
ChIP-seq HOMER annotatePeaks.pl stats
6.2 years ago by nanoide ▴ 120
0
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0
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12k
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Comment: C: samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
6.2 years ago by nanoide ▴ 120
19
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6
replies
12k
views
samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
ATAC-seq samtools Markduplicates
updated 6.2 years ago by ★ 2.1k • written 6.2 years ago by ▴ 120
0
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0
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12k
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Comment: C: samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
6.2 years ago by nanoide ▴ 120
2
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2
replies
2.9k
views
Question about ChromHMM overlap enrichment
ChromHMM ChIP-Seq segmentation
updated 6.3 years ago by ▴ 130 • written 7.3 years ago by ▴ 120
0
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0
replies
1.4k
views
ATACseqQC factorFootprints function
ATACseqQC ATAC-seq footprint
6.4 years ago by nanoide ▴ 120
0
votes
0
replies
1.9k
views
Help filling the configuration file for the masurca assembler
illumina Assembly masurca fastqc pacbio
6.4 years ago by nanoide ▴ 120
6
votes
3
replies
2.7k
views
Question about exon/intron counting in RNA-seq dataset analysis
RNA-Seq htseq-count featureCounts
updated 6.4 years ago by 15k • written 6.4 years ago by ▴ 120
0
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0
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2.7k
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Comment: C: Question about exon/intron counting in RNA-seq dataset analysis
6.4 years ago by nanoide ▴ 120
1
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0
replies
14k
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Comment: A: MACS2 --SPMR and --nolambda usage for version 2.1.2
6.5 years ago by nanoide ▴ 120
1
vote
1
reply
1.3k
views
Is it possible to control the coordinate of the peak that HOMER takes into account to annotate?
ChIP-seq macs2 peaks homer annotation
updated 6.5 years ago by ★ 19k • written 6.5 years ago by ▴ 120
0
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0
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7.5k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
12
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13
replies
7.5k
views
Running STAR aligner with paired-end and single-end reads simultaneously
STAR RNA-Seq paired-end single-end
6.5 years ago by nanoide ▴ 120
0
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1
reply
7.5k
views
Comment: A: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
0
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0
replies
2.7k
views
Comment: C: Getting motif instances corresponding to regions
6.5 years ago by nanoide ▴ 120
4
votes
1
reply
3.2k
views
Converting motif databases from meme suite to other formats
meme motif format
updated 6.5 years ago by 36k • written 6.5 years ago by ▴ 120
7
votes
4
replies
2.7k
views
Getting motif instances corresponding to regions
homer motif analysis instances regions
updated 6.5 years ago by 36k • written 6.5 years ago by ▴ 120
0
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0
replies
2.7k
views
Comment: C: Getting motif instances corresponding to regions
6.5 years ago by nanoide ▴ 120
0
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0
replies
7.5k
views
Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
0
votes
1
reply
7.5k
views
Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
1
vote
1
reply
6.0k
views
Comment: C: Differences between motif enrichment analysis and footprinting in the context of
6.5 years ago by nanoide ▴ 120
1
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0
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7.5k
views
Comment: A: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
7
votes
3
replies
6.0k
views
Differences between motif enrichment analysis and footprinting in the context of DNAse-seq/ATAC-seq
footprinting atac-seq dnase-seq motifs
updated 6.5 years ago by 12k • written 6.5 years ago by ▴ 120
0
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0
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7.5k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
6.5 years ago by nanoide ▴ 120
0
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0
replies
6.1k
views
Comment: C: TPKM vs FPKM
6.9 years ago by nanoide ▴ 120
10
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9
replies
6.1k
views
TPKM vs FPKM
RNA-Seq FPKM
updated 6.9 years ago by 89k • written 6.9 years ago by ▴ 120
0
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1
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6.1k
views
Comment: C: TPKM vs FPKM
6.9 years ago by nanoide ▴ 120
0
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0
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6.1k
views
Comment: C: TPKM vs FPKM
6.9 years ago by nanoide ▴ 120
0
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0
replies
2.0k
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Comment: C: How to get regions with mapped reads
7.0 years ago by nanoide ▴ 120
0
votes
0
replies
2.0k
views
Comment: C: How to get regions with mapped reads
7.0 years ago by nanoide ▴ 120
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