Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/1a3e59f58c151d48b8de7702706fa04b68812aafcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 1a3e59f58c151d48b8de7702706fa04b68812aaf
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: 1a3e59f58c151d48b8de7702706fa04b68812aaf
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2018_C01
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell GCGCTAGGTTTCGCGC-2018_C01, GTTTCAGCACCAGGTT-2018_C01, TTTATGGAGGGTCTAT-2018_C01, TAGGTTATCCTGGCTT-2018_C01, CCGTTATGTTGAGCCG-2018_C01 (top 5 of 6500 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
269,184,625
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 269184625
chr1 24358997
chr2 20902205
chr3 17136303
chr4 13534786
chr5 14622629
chr6 14731564
chr7 14080742
chr8 12003331
chr9 11474212
chr10 12593298
chr11 14411797
chr12 13172587
chr13 7225779
chr14 9056741
chr15 8344453
chr16 9997903
chr17 12306590
chr18 6009362
chr19 11051719
chr20 7263154
chr21 3217217
chr22 5609695
chrX 5637126
chrY 387004
GL000009.2 1250
GL000194.1 6871
GL000195.1 9960
GL000205.2 13983
GL000213.1 28
GL000218.1 1872
GL000219.1 8150
KI270711.1 280
KI270713.1 7946
KI270721.1 308
KI270726.1 244
KI270727.1 638
KI270728.1 3051
KI270731.1 111
KI270734.1 739

Fragment lengths

fragments min max mean median
fragments 269184625 1 5043 169.28 154
global fragment-length histogram

Files

Filename Size md5
1a3e59f58c151d48b8de7702706fa04b68812aaf.gz 2.51 GB 5922b03c0d2d1cc7ad25f93c16830cf8
1a3e59f58c151d48b8de7702706fa04b68812aaf.gz.tbi 1.2 MB fd0da024e7acebe7e51ddb3db7e6c5ef
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB 0765e898a625e89586d0e5ab295c8c9e
statistics/