Resource

Id summary/johansen2025Crossspecies/atac_fragments/human/703596d63d016c2ee6f8f4aecfa1d64e58b1eedbcontent_copy
Type fragment_score
Version 0
Summary ATAC fragments for human from library 703596d63d016c2ee6f8f4aecfa1d64e58b1eedb
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: 703596d63d016c2ee6f8f4aecfa1d64e58b1eedb
  • modalities: ATAC
  • processing_level: aligned
  • reference_genome: reference/Human/genome/GRCh38.p14
  • resolution: single_nucleus
  • sample_id: 2530_C02
  • sequencing_platform: Illumina
  • species: human
  • vendor: 10x_Genomics

Scores (2)

ID Type Default annotation Description Histogram Range Summary
cell str

cell
HISTOGRAM FOR cell CAAGTTATCGAGCTAT-2530_C02, GGCTATTAGTTTGCGG-2530_C02, CGACCTGCACTAGCGT-2530_C02, CCCAATTGTGATGGCT-2530_C02, GGGCAATAGCGCTCAA-2530_C02 (top 5 of 3066 values)
count int

count
HISTOGRAM FOR count [1, 1]
n
195,656,699
mean
1
sd
0

n counts fragments; sd is the population standard deviation.

Fragments

Chromosome Fragments
all chromosomes 195656699
chr1 17392514
chr2 15348019
chr3 12824226
chr4 10123282
chr5 10856458
chr6 10718793
chr7 10348201
chr8 8932523
chr9 8136049
chr10 9193904
chr11 10273480
chr12 9512568
chr13 5415059
chr14 6498938
chr15 6044177
chr16 7111355
chr17 8378974
chr18 4539538
chr19 7030475
chr20 5220770
chr21 2320556
chr22 4016259
chrX 5364550
chrY 15302
GL000009.2 1531
GL000194.1 3538
GL000195.1 4608
GL000205.2 10740
GL000213.1 157
GL000218.1 2587
GL000219.1 10312
KI270711.1 531
KI270713.1 2842
KI270721.1 224
KI270726.1 6
KI270727.1 723
KI270728.1 2195
KI270731.1 184
KI270734.1 551

Fragment lengths

fragments min max mean median
fragments 195656699 1 5040 189.46 161
global fragment-length histogram

Files

Filename Size md5
703596d63d016c2ee6f8f4aecfa1d64e58b1eedb.gz 1.84 GB af1a940882723d79a45407bb18ae1a1e
703596d63d016c2ee6f8f4aecfa1d64e58b1eedb.gz.tbi 1.03 MB 6620f466f5a4e934287105f0e62f346c
fragment_count_dist_plot.py 853.0 B 9d735ee8c687286d50484e7f1e398e60
genomic_resource.yaml 1.5 KB bc313b05869643174e77e85151c9f9b4
statistics/