Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/d8f6b735c350b50bdf79f9253ffceb19871b8b8acontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library d8f6b735c350b50bdf79f9253ffceb19871b8b8a
Description
Labels
  • assay: 10x_Multiome
  • brain_region: basal ganglia
  • cell_meta_resource_id: summary/johansen2025Crossspecies/10x_multiomics_cell_meta_data
  • data_types: fragments
  • dataset: johansen2025Crossspecies
  • library: d8f6b735c350b50bdf79f9253ffceb19871b8b8a
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2393_C06
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CGTTGCGCAAAGGTAC-2393_C06, GCCAGGTTCCCATAAA-2393_C06, CTCCGGACACCTCAGG-2393_C06, GAAGGCCCACTTGTTC-2393_C06, CTCTCACAGCTCGCTT-2393_C06 (top 5 of 1454 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
26,721,192
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 26721192
chr1 2469045
chr2 2063548
chr3 1685993
chr4 1267949
chr5 1429633
chr6 1455996
chr7 1369311
chr8 1157457
chr9 1179905
chr10 1306708
chr11 1457288
chr12 1268537
chr13 681685
chr14 890486
chr15 844672
chr16 984294
chr17 1247566
chr18 598022
chr19 1089222
chr20 722128
chr21 314851
chr22 564655
chrX 665151
chrY 1677
GL000009.2 117
GL000194.1 995
GL000195.1 850
GL000205.2 1247
GL000213.1 25
GL000218.1 198
GL000219.1 1060
KI270711.1 74
KI270713.1 461
KI270721.1 38
KI270726.1 3
KI270727.1 75
KI270728.1 218
KI270731.1 21
KI270734.1 31

Fragment lengths

fragments min max mean median
fragments 26721192 1 5023 177.73 158
global fragment-length histogram

Files

Filename Size md5
d8f6b735c350b50bdf79f9253ffceb19871b8b8a.gz 258.43 MB 4963939ab7c9b7d57c3e1010d782f49f
d8f6b735c350b50bdf79f9253ffceb19871b8b8a.gz.tbi 577.21 KB de4a3970f234b53e12c1ad4be4935d4d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 0bf97ee5e4d2073f35ad0d199edcc805
statistics/