Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/3087a8cfb40737d90e0e92fe4d4d2e618504df1fcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 3087a8cfb40737d90e0e92fe4d4d2e618504df1f
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: 3087a8cfb40737d90e0e92fe4d4d2e618504df1f
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 930_E05
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCTAAGTTCCGGCTAA-930_E05, CTGGTTACAGTGAACG-930_E05, CTGCAATAGAGAAGGG-930_E05, AGCTTTAAGCGATAAG-930_E05, GCAAGTCGTTGAGCCG-930_E05 (top 5 of 3655 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
234,866,152
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 234866152
chr1 20719510
chr2 18873280
chr3 15607295
chr4 12491475
chr5 13372163
chr6 13211269
chr7 12769044
chr8 10950631
chr9 9650049
chr10 10986446
chr11 12437194
chr12 11656115
chr13 6460177
chr14 7871678
chr15 7227997
chr16 8256767
chr17 9713417
chr18 5504339
chr19 8166331
chr20 6134165
chr21 2698648
chr22 4757056
chrX 5026105
chrY 274947
GL000009.2 563
GL000194.1 6676
GL000195.1 5495
GL000205.2 8818
GL000213.1 153
GL000218.1 2361
GL000219.1 16794
KI270711.1 471
KI270713.1 3149
KI270721.1 83
KI270726.1 367
KI270727.1 466
KI270728.1 3712
KI270731.1 376
KI270734.1 570

Fragment lengths

fragments min max mean median
fragments 234866152 1 5038 188.9 167
global fragment-length histogram

Files

Filename Size md5
3087a8cfb40737d90e0e92fe4d4d2e618504df1f.gz 2.19 GB 5bd3fce07789cf989806bc72dda9d52f
3087a8cfb40737d90e0e92fe4d4d2e618504df1f.gz.tbi 1.09 MB ab487e63e6ccbcf1510cdded5afc7bd2
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB bf46add68163ef1582744122f850269b
statistics/