Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/3bc34b39fcc7970ffd907e30eece54975fbc4b04content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 3bc34b39fcc7970ffd907e30eece54975fbc4b04
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: 3bc34b39fcc7970ffd907e30eece54975fbc4b04
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 847_D04
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell AAGTGAAGTTGGTGAC-847_D04, CAATAAGCAACAGGAT-847_D04, GACCGTTCAGCAAGAT-847_D04, AGAACCAAGGTGTTAC-847_D04, TATGGGCGTCCCGGAA-847_D04 (top 5 of 2908 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
157,512,300
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 157512300
chr1 13233444
chr2 12878615
chr3 10942421
chr4 9476780
chr5 9459381
chr6 9003990
chr7 8675925
chr8 7533265
chr9 6468939
chr10 7234662
chr11 7831414
chr12 7809221
chr13 4865384
chr14 5202880
chr15 4470992
chr16 4880749
chr17 5570382
chr18 3951964
chr19 4458483
chr20 3651783
chr21 1918201
chr22 2686027
chrX 5259349
chrY 11056
GL000009.2 1235
GL000194.1 2946
GL000195.1 3368
GL000205.2 9115
GL000213.1 121
GL000218.1 2529
GL000219.1 11013
KI270711.1 401
KI270713.1 1822
KI270721.1 66
KI270726.1 181
KI270727.1 287
KI270728.1 3414
KI270731.1 286
KI270734.1 209

Fragment lengths

fragments min max mean median
fragments 157512300 1 5039 181.7 166
global fragment-length histogram

Files

Filename Size md5
3bc34b39fcc7970ffd907e30eece54975fbc4b04.gz 1.52 GB ed1645310e1230d0d3a880106bbeca11
3bc34b39fcc7970ffd907e30eece54975fbc4b04.gz.tbi 1009.51 KB a38664a496916a8d4d7340bf31b0b06d
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 4690478e1f6e0f3a6bcdf0e19ef4bcf3
statistics/