Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/a5092558a0a051311788e8eab4846178f08b9ffdcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library a5092558a0a051311788e8eab4846178f08b9ffd
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: a5092558a0a051311788e8eab4846178f08b9ffd
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2372_B04
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCCCATAAGGAGCAAC-2372_B04, GACTAATGTGTGTCCC-2372_B04, CCACACAAGGTCCGTA-2372_B04, ATCACTAAGGAATAAC-2372_B04, CGAAGCGAGTATTGGC-2372_B04 (top 5 of 3018 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
172,399,881
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 172399881
chr1 15498747
chr2 13518056
chr3 11248299
chr4 8942397
chr5 9508858
chr6 9697354
chr7 9165561
chr8 7671917
chr9 7362665
chr10 8072508
chr11 9105804
chr12 8412256
chr13 4712949
chr14 5775635
chr15 5362370
chr16 6298360
chr17 7570406
chr18 3986678
chr19 6530422
chr20 4512989
chr21 2060571
chr22 3485341
chrX 3620176
chrY 246891
GL000009.2 689
GL000194.1 3211
GL000195.1 4729
GL000205.2 10348
GL000213.1 66
GL000218.1 1368
GL000219.1 7135
KI270711.1 534
KI270713.1 3311
KI270721.1 164
KI270726.1 23
KI270727.1 138
KI270728.1 504
KI270731.1 103
KI270734.1 348

Fragment lengths

fragments min max mean median
fragments 172399881 1 5038 203.77 167
global fragment-length histogram

Files

Filename Size md5
a5092558a0a051311788e8eab4846178f08b9ffd.gz 1.6 GB 25048b86ad2933be9d7eb64595acc135
a5092558a0a051311788e8eab4846178f08b9ffd.gz.tbi 964.21 KB 5790a9683e3f881efa1c78afa41a9111
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 3389cf77915c1b03bbe1e0f401245d58
statistics/