Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/85db906956c7b642c2f8ba26899fdfe4e9f0a952content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 85db906956c7b642c2f8ba26899fdfe4e9f0a952
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: 85db906956c7b642c2f8ba26899fdfe4e9f0a952
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2349_A08
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell TGATCAGGTGAAACAA-2349_A08, GATTCATCAGGTATTT-2349_A08, ACACTAATCCCTCAGT-2349_A08, GATGGCTGTCACAGCG-2349_A08, GTGAGCGAGCGGCTGT-2349_A08 (top 5 of 1864 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
99,780,533
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 99780533
chr1 8945049
chr2 7708604
chr3 6430821
chr4 4994340
chr5 5391667
chr6 5541665
chr7 5344927
chr8 4425255
chr9 4134668
chr10 4646898
chr11 5312381
chr12 4903596
chr13 2681808
chr14 3382417
chr15 3134751
chr16 3768388
chr17 4476666
chr18 2238747
chr19 4175488
chr20 2642722
chr21 1172299
chr22 2090275
chrX 2085934
chrY 130141
GL000009.2 302
GL000194.1 2074
GL000195.1 3396
GL000205.2 6433
GL000213.1 26
GL000218.1 776
GL000219.1 4666
KI270711.1 203
KI270713.1 2442
KI270721.1 89
KI270726.1 7
KI270727.1 65
KI270728.1 259
KI270731.1 68
KI270734.1 220

Fragment lengths

fragments min max mean median
fragments 99780533 1 5030 194.27 169
global fragment-length histogram

Files

Filename Size md5
85db906956c7b642c2f8ba26899fdfe4e9f0a952.gz 917.61 MB 7a684f4054c6bac105a50446085d20d3
85db906956c7b642c2f8ba26899fdfe4e9f0a952.gz.tbi 761.86 KB 722a10013ad793a3750788fd8ed05882
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 676470c8a2a8d7ffc6969937cdfe1a00
statistics/