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Answer: A: Question about HOMER peak annotation to some features. Customize gff3?
3.3 years ago by nanoide ▴ 120
0
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2
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1.6k
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Question about HOMER peak annotation to some features. Customize gff3?
ChIP-Seq HOMER annotation
3.3 years ago by nanoide ▴ 120
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1
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911
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Comment: C: Recommendations on FAIRE-seq/ATAC-seq optimal coverage for large genome
3.5 years ago by nanoide ▴ 120
3
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3
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911
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Recommendations on FAIRE-seq/ATAC-seq optimal coverage for large genome
ATAC-seq FAIRE-seq Coverage
3.5 years ago by nanoide ▴ 120
10
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9
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1.4k
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Help interpretating DESeq2 output
Deseq2 Fold-Change RNA-seq
updated 8 months ago by 43k • written 3.5 years ago by ▴ 120
1
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0
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1.4k
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Comment: C: Help interpretating DESeq2 output
3.5 years ago by nanoide ▴ 120
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1
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1.4k
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Comment: C: Help interpretating DESeq2 output
3.5 years ago by nanoide ▴ 120
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1
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1.4k
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Comment: C: Help interpretating DESeq2 output
3.5 years ago by nanoide ▴ 120
0
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0
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878
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Trying to compile the software seqoutbias with cargo within a conda environment
rust cargo seqoutbias compilation
3.6 years ago by nanoide ▴ 120
0
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0
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880
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Some question on HGAP installation and use
genome assembly HGAP PacBio
3.9 years ago by nanoide ▴ 120
2
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3
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1.4k
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How to add a flag to a sam/bam file
ATAC-seq samtools flag filtering
updated 4.2 years ago by 20 • written 4.3 years ago by ▴ 120
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1
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1.4k
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Comment: C: How to add a flag to a sam/bam file
4.3 years ago by nanoide ▴ 120
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4.7k
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Comment: C: ATAC-seq TSS profile plot interpretation
4.5 years ago by nanoide ▴ 120
0
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1
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4.7k
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Comment: C: ATAC-seq TSS profile plot interpretation
4.5 years ago by nanoide ▴ 120
0
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1
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4.7k
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Comment: C: ATAC-seq V-plot interpretation
4.5 years ago by nanoide ▴ 120
9
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9
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4.7k
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ATAC-seq TSS profile plot interpretation
ATAC-seq TSS V-plot
4.5 years ago by nanoide ▴ 120
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1
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4.7k
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Comment: C: ATAC-seq V-plot interpretation
4.5 years ago by nanoide ▴ 120
1
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1
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2.2k
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HaplotypeCallerSpark How to use
snp GATK
updated 4.6 years ago by 5.8k • written 4.7 years ago by ▴ 120
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0
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3.2k
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Comment: C: Merging the output of salmon for RNA-seq counting with paired-end and single-end
4.7 years ago by nanoide ▴ 120
6
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4
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3.2k
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Merging the output of salmon for RNA-seq counting with paired-end and single-end reads simultaneously
RNA-Seq single-end paired-end salmon
4.7 years ago by nanoide ▴ 120
4
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0
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2.3k
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Peak annotation with HOMER. Statistics with the annStats parameter
ChIP-seq HOMER annotatePeaks.pl stats
4.8 years ago by nanoide ▴ 120
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0
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8.2k
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Comment: C: samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
4.8 years ago by nanoide ▴ 120
19
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6
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8.2k
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samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
ATAC-seq samtools Markduplicates
updated 4.8 years ago by ★ 2.0k • written 4.8 years ago by ▴ 120
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0
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8.2k
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Comment: C: samtools markdup vs PICARD's MarkDuplicates when removing duplicated reads
4.8 years ago by nanoide ▴ 120
2
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2
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2.4k
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Question about ChromHMM overlap enrichment
ChromHMM ChIP-Seq segmentation
updated 4.9 years ago by ▴ 130 • written 5.9 years ago by ▴ 120
0
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0
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1.2k
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ATACseqQC factorFootprints function
ATACseqQC ATAC-seq footprint
5.0 years ago by nanoide ▴ 120
0
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0
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1.6k
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Help filling the configuration file for the masurca assembler
illumina Assembly masurca fastqc pacbio
5.0 years ago by nanoide ▴ 120
6
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3
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2.1k
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Question about exon/intron counting in RNA-seq dataset analysis
RNA-Seq htseq-count featureCounts
updated 5.1 years ago by 14k • written 5.1 years ago by ▴ 120
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0
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2.1k
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Comment: C: Question about exon/intron counting in RNA-seq dataset analysis
5.1 years ago by nanoide ▴ 120
1
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0
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9.0k
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Comment: A: MACS2 --SPMR and --nolambda usage for version 2.1.2
5.1 years ago by nanoide ▴ 120
1
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1
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1.0k
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Is it possible to control the coordinate of the peak that HOMER takes into account to annotate?
ChIP-seq macs2 peaks homer annotation
updated 5.1 years ago by ★ 16k • written 5.1 years ago by ▴ 120
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6.0k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
5.1 years ago by nanoide ▴ 120
0
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1
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6.0k
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Comment: A: Running STAR aligner with paired-end and single-end reads simultaneously
5.1 years ago by nanoide ▴ 120
12
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13
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6.0k
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Running STAR aligner with paired-end and single-end reads simultaneously
STAR RNA-Seq paired-end single-end
5.1 years ago by nanoide ▴ 120
0
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0
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2.0k
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Comment: C: Getting motif instances corresponding to regions
5.1 years ago by nanoide ▴ 120
4
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1
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2.4k
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Converting motif databases from meme suite to other formats
meme motif format
updated 5.1 years ago by 35k • written 5.1 years ago by ▴ 120
7
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4
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2.0k
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Getting motif instances corresponding to regions
homer motif analysis instances regions
updated 5.1 years ago by 35k • written 5.1 years ago by ▴ 120
0
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0
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2.0k
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Comment: C: Getting motif instances corresponding to regions
5.1 years ago by nanoide ▴ 120
0
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0
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6.0k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
5.2 years ago by nanoide ▴ 120
0
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1
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6.0k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
5.2 years ago by nanoide ▴ 120
1
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1
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4.4k
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Comment: C: Differences between motif enrichment analysis and footprinting in the context of
5.2 years ago by nanoide ▴ 120
1
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0
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6.0k
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Comment: A: Running STAR aligner with paired-end and single-end reads simultaneously
5.2 years ago by nanoide ▴ 120
7
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3
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4.4k
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Differences between motif enrichment analysis and footprinting in the context of DNAse-seq/ATAC-seq
footprinting atac-seq dnase-seq motifs
updated 5.2 years ago by 12k • written 5.2 years ago by ▴ 120
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0
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6.0k
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Comment: C: Running STAR aligner with paired-end and single-end reads simultaneously
5.2 years ago by nanoide ▴ 120
0
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0
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4.4k
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Comment: C: TPKM vs FPKM
5.6 years ago by nanoide ▴ 120
10
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9
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4.4k
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TPKM vs FPKM
RNA-Seq FPKM
updated 5.6 years ago by 82k • written 5.6 years ago by ▴ 120
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1
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4.4k
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Comment: C: TPKM vs FPKM
5.6 years ago by nanoide ▴ 120
0
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0
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4.4k
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Comment: C: TPKM vs FPKM
5.6 years ago by nanoide ▴ 120
0
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0
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1.7k
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Comment: C: How to get regions with mapped reads
5.6 years ago by nanoide ▴ 120
0
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0
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1.7k
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Comment: C: How to get regions with mapped reads
5.6 years ago by nanoide ▴ 120
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