Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/f6f0acfa13b67fe3997a7ae77f1c6c682ae1fcf3content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library f6f0acfa13b67fe3997a7ae77f1c6c682ae1fcf3
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: f6f0acfa13b67fe3997a7ae77f1c6c682ae1fcf3
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 1955_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 GCGCTTGCATCAGTAT-1955_C06, ATAGATGCAGGCGAGT-1955_C06, CCACTTGGTTAGCGTA-1955_C06, CAGGCTATCTCACTAT-1955_C06, GAGTGTTTCCGTGACA-1955_C06 (top 5 of 7837 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
314,354,086
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 314354086
chr1 28200970
chr2 24366372
chr3 20128247
chr4 15854414
chr5 17151316
chr6 17431238
chr7 16769177
chr8 14055950
chr9 13126342
chr10 14531083
chr11 16787324
chr12 15527686
chr13 8423730
chr14 10582923
chr15 9689328
chr16 11676257
chr17 14024369
chr18 7003269
chr19 13299718
chr20 8315221
chr21 3736937
chr22 6502354
chrX 6654138
chrY 446984
GL000009.2 1336
GL000194.1 8111
GL000195.1 13131
GL000205.2 16527
GL000213.1 25
GL000218.1 2069
GL000219.1 10555
KI270711.1 311
KI270713.1 10900
KI270721.1 401
KI270726.1 291
KI270727.1 855
KI270728.1 2956
KI270731.1 158
KI270734.1 1113

Fragment lengths

fragments min max mean median
fragments 314354086 1 5040 154.67 141
global fragment-length histogram

Files

Filename Size md5
f6f0acfa13b67fe3997a7ae77f1c6c682ae1fcf3.gz 2.92 GB 4411f2138ace46a588c44eea00952d03
f6f0acfa13b67fe3997a7ae77f1c6c682ae1fcf3.gz.tbi 1.29 MB ecd3a8389cb2b9b53be3465f92c4e716
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 47c0f7afa079b9860f6c41dad79d26d6
statistics/