Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/8bc0fe2c2b0855b066615c918417060adb6fe5e1content_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 8bc0fe2c2b0855b066615c918417060adb6fe5e1
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: 8bc0fe2c2b0855b066615c918417060adb6fe5e1
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2540_B02
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GGGTGTTGTAATGGCC-2540_B02, AGGTCAAAGCTAAAGG-2540_B02, GGTGAGCCAGCAGGTA-2540_B02, AGTAACCTCGTTTCGC-2540_B02, CTACTAAAGCCGCTAA-2540_B02 (top 5 of 3981 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
237,989,188
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 237989188
chr1 21026846
chr2 18657789
chr3 15668308
chr4 12614719
chr5 13212648
chr6 13160898
chr7 12702478
chr8 10891060
chr9 9933080
chr10 11169568
chr11 12514636
chr12 11511598
chr13 6690380
chr14 7926880
chr15 7309528
chr16 8493444
chr17 9949851
chr18 5614563
chr19 8464162
chr20 6193515
chr21 2903854
chr22 4752969
chrX 6553544
chrY 21148
GL000009.2 1987
GL000194.1 4814
GL000195.1 5257
GL000205.2 13382
GL000213.1 172
GL000218.1 3476
GL000219.1 13923
KI270711.1 664
KI270713.1 3466
KI270721.1 231
KI270726.1 18
KI270727.1 878
KI270728.1 2593
KI270731.1 210
KI270734.1 651

Fragment lengths

fragments min max mean median
fragments 237989188 1 5039 175.58 156
global fragment-length histogram

Files

Filename Size md5
8bc0fe2c2b0855b066615c918417060adb6fe5e1.gz 2.25 GB a3682d87c1df80aa81edfc0a33bdb7ac
8bc0fe2c2b0855b066615c918417060adb6fe5e1.gz.tbi 1.13 MB 8cd2a4881565504e08ad870c8c6d2709
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 28e598b88ac296a926b0f9911bb1661b
statistics/