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Cut&Run TF Analysis - Very Low Peak Counts Despite Good Library Quality
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2
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9
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May 28, 2025
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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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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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bedgraph-to-bigwig error
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3
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415
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November 14, 2023
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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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Help with making peaks MACS Chip-sequence analysis
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1
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389
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October 2, 2023
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CHM13 T2T genome not found in options for some tools
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10
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944
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July 20, 2023
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Score column in narrowPeak file?
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2
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1236
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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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1541
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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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MACS2 peak calling, there is not a explicit input control
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2
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720
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November 28, 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 narrowpeaks results are empty when adding an input
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2
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565
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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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usegalaxy.org IGV connection issue
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4
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481
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June 1, 2022
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Fatal error in chip seeker
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1
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398
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May 17, 2022
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Tool for merging 2x single-read illumina sequencing files (fastq) into one?
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7
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647
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November 5, 2021
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We did our analysis using edgeR and we got many gene but when we used Diffbind we got less no of chromosome regions ?
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1
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718
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September 13, 2021
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What are the Parameters for using DiffBind for analysing ATAC-seq in usegalaxy.org
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2
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605
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September 11, 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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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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Error in MACS2 paired end peakcalling
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0
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551
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March 24, 2021
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No difference in peaks between ChIP sample and control / Bad background noise on control for ChIP-Seq / Weak enrichment for ChIP-Seq
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0
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634
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July 10, 2020
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Uploading Annotation File to History
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0
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450
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April 14, 2020
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Error encountered during peak calling using MACS2 callpeak
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0
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451
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April 12, 2020
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ChIP seerker misannotating features
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0
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309
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April 11, 2020
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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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Associate peaks (from ChIP-seq) with nearby genes
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0
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486
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March 25, 2020
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computeMatrix takes long to run
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0
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684
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February 26, 2020
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