Results of NvWA

Nvwa, a deep learning–based strategy, to predict expression landscapes and decipher regulatory elements (Filters) at the single-cell level.

tomtom_DBtfmodiscoTrimmed_NvwaConv1.html showing the comparison of tfmodisco-based and featuremap-based filters.

Filter_Annotation showing the Annotation of regulatory elements (Filters).

Example

Dmel_cisTarget_tomtom.html example for tomtom annotation of Drosophila Filters against cisTarget motif database.

Celegan_Cisbp_tomtom.html example for tomtom annotation of C. elegans Filters against Cisbp motif database.

scATAC_overlap_test for init, train and test models showing the permutation test of whole genome prediction and collected epigenetic peaks.

Example

Dmel.overlap.p.csv example for Drosophila.

qSample	tSample	qLen	tLen	N_OL	pvalue	p.adjust
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/Deaf1-ENCFF036WSP.bed	51746	8667	5469	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/dsx-ENCFF679JMM.bed	51746	9154	5194	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/Emβ-HLH-ENCFF814OVW.bed	51746	8549	5322	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/grau-ENCFF848BAO.bed	51746	9624	6137	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/HLH106-ENCFF274ZTV.bed	51746	7993	5118	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/NF-YC-ENCFF703AHS.bed	51746	7476	5006	0.0099009900990099	0.0107260726072607
./Peak_tracks/Peak_Drosophila10.Mean.peak_random_location.bed	../resource_encode_Dmel/Rel-ENCFF357FPP.bed	51746	9419	6182	0.0099009900990099	0.0107260726072607