Cut&Run TF Analysis - Very Low Peak Counts Despite Good Library Quality
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2
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6
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May 28, 2025
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Gene ID's being filtered out in ChipSeq analysis
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5
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22
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November 4, 2024
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MACS2 bdgcmp troubleshooting
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4
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50
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August 28, 2024
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PCA with ChIP-seq data by using DeepTools
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2
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120
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August 7, 2024
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bedtools intersect intervals
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5
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238
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June 21, 2024
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PCA (Principal Component Analysis) plots from ChIP-seq data
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3
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270
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June 20, 2024
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How to normalised ChIP-Seq data set with Spike-in
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1
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188
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June 8, 2024
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Title: Scatter plot showing correlation among ChIP-seq and RNA-seq data
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2
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173
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June 7, 2024
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MACS2 call large peaks
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1
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130
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April 9, 2024
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Why the TSS reference point vs Scale region pattern very different?
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12
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524
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January 18, 2024
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ChIP-seq: MACS2 discovered peaks with over 2.0 fold enrichment show no difference when inspected at the IGB browser.
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4
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369
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January 12, 2024
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ChIPseeker missing first peak in the interval file?
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2
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242
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January 10, 2024
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The plotHeatmap (DeepTool) does not produce the desired heatmap/ ChIP-seq analysis (H3K4me3)
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4
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629
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October 27, 2023
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Rfile throwing error
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1
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209
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October 20, 2023
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Usage help -- single end versus paired end BAM options
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5
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619
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November 10, 2023
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Score column in narrowPeak file?
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2
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1235
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May 10, 2023
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How to arrange samples for Diffbind analysis
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6
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1538
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May 4, 2023
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Chip-seq biological replicates, multiple timepoints
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1
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372
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April 13, 2023
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Help with Diffbind and multiple conditions
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1
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515
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April 12, 2023
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Help with chipseq workflow to find motifs and genome ontology data
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2
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338
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September 17, 2022
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MACS2 scientific result troubleshooting
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6
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847
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June 16, 2022
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MACS2 gives no error but I am getting zero peaks as well…problem or not a problem?
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4
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1174
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June 15, 2022
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diffbind update
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5
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723
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December 21, 2023
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Fatal error in CHIPseeker
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1
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951
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January 20, 2022
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How to get gene list from fasta sequence file.
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1
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943
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September 10, 2021
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DiffBind Chip-Seq error
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5
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1302
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July 15, 2021
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Update Request -- Diffbind
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1
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389
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June 5, 2021
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Diffbind error: Not enough y observations
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3
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1402
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May 28, 2021
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Link ChIP-seq`s peaks with nearby genes
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3
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869
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April 1, 2020
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Extract Genomic DNA: index not found for hg19
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4
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999
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December 2, 2019
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