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79 Open 35 Closed
79 Open 35 Closed
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Issues list

Why is deviation z-score in chromVar does not have 0 mean and 1 variance?
#122 opened Feb 25, 2025 by Yijia-Jiang
Question: paired de# bulk ATAC-seq analysis
#121 opened Jan 28, 2025 by AlexBlais74
error: no duplicates allowed in deviationsTsne
#120 opened Dec 1, 2024 by o-doyle
Add support for DelayedMatrix
#119 opened Oct 17, 2024 by mfansler
ChromVar installation - Apple silicon - R4.4.1
#118 opened Sep 30, 2024 by cnerlov
Use "getBackgroundPeaks" and save bakgrounds as bedfiles rather than indexes
#117 opened Sep 17, 2024 by giacomogrillo7
ChromVAR on integrated dataset - suppressing batch effects ?
#116 opened Sep 6, 2024 by solvi808
> ggmotif_plot(toPWM(reverseComplement(motifs[[closest_match1]]),type = "prob")) Error in normargPfm(x) : invalid PFM 'x': not an integer matrix
#115 opened Sep 3, 2024 by GaF123
1
computeDeviations group comparison
#113 opened Jun 21, 2024 by meganrussell24
1
chromVAR installation error
#112 opened Feb 28, 2024 by JasonJiangs
3
filterpeaks error
#111 opened Feb 16, 2024 by woooowonjin
Error addGCBias: trying to load regions beyond the boundaries of non-circular sequence "chr13"
#110 opened Feb 10, 2024 by massonix
1
Error in .local(x, na.rm, dims, ...) : object 'R_dense_rowSums' not found
#109 opened Jan 19, 2024 by Chhiring-Lama
1
Issue on chromVAR installation
#108 opened Jan 4, 2024 by SciComp8
1
filterPeaks error
#104 opened Mar 27, 2023 by alkurowska
addGCBias Error in value[[3L]](cond) - truncaded file
#102 opened Oct 12, 2022 by artsvendsen
Gene name
#101 opened Aug 25, 2022 by tiffanyformosa
issue of installing chromVAR
#99 opened Jun 24, 2022 by BenxiaHu
chromvar from signac wrapper is stuck (not progressing)
#98 opened Apr 28, 2022 by Dena2021
2
Question about comparing different samples' TF deviation score
#97 opened Mar 30, 2022 by tianchen2019
question on background peak selection
#96 opened Mar 6, 2022 by q226
RunChromVAR() error when computing deviations from background
#95 opened Feb 17, 2022 by annaestevecodina
Error in counts_check(object) : ncol(object) > 1
#93 opened Dec 7, 2021 by c2b2pss
4
Error filtering the sample
#92 opened Dec 3, 2021 by Chhiring-Lama
Cann't install chromVAR successfully on Linux
#91 opened Jun 4, 2021 by whui2bioinformatics
3
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