Anomaloglossus baeobatrachus

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Copyright Antoine Fouquet, used with permission
Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) aAnoBae1 144.65 Gbp N/A 116.0 GiB
Arima aAnoBae1 360.39 Gbp N/A 187.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 18 May 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
aAnoBae1 PacBio HiFi (.fq) 144.65 Gbp N/A 116.0 GiB
Arima 360.39 Gbp N/A 187.1 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 18 May 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_vgp_HiC_2.0 from 17 June 2023
aAnoBae1.HiC.hap1.20230617.fasta.gz (1.6 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 65 7.29 Mbp 1 1.02 Gbp
20 165 5.52 Mbp 2 0.95 Gbp
30 292 4.46 Mbp 2 0.95 Gbp
40 449 3.57 Mbp 3 0.70 Gbp
50 647 2.80 Mbp 4 0.55 Gbp
60 904 2.15 Mbp 6 348.65 Mbp
70 1243 1.54 Mbp 8 258.80 Mbp
80 1748 1.01 Mbp 11 210.09 Mbp
90 2635 474.50 Kbp 15 31.94 Mbp
100 7393 2.32 Kbp 3700 2.32 Kbp
1.000x 7393 6.26 Gbp 3700 6.26 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_vgp_HiC_2.0 from 17 June 2023
aAnoBae1.HiC.hap2.20230617.fasta.gz (1.6 GiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 56 8.27 Mbp 1 1.39 Gbp
20 144 6.18 Mbp 1 1.39 Gbp
30 255 4.82 Mbp 2 1.36 Gbp
40 401 3.72 Mbp 2 1.36 Gbp
50 588 2.88 Mbp 3 0.71 Gbp
60 834 2.19 Mbp 4 0.60 Gbp
70 1165 1.60 Mbp 5 265.21 Mbp
80 1637 1.05 Mbp 8 176.51 Mbp
90 2422 0.54 Mbp 13 48.64 Mbp
100 6077 4.84 Kbp 2497 4.84 Kbp
1.000x 6077 6.13 Gbp 2497 6.13 Gbp
NG based on genome size .
Assembly Metadata
assembly_vgp_HiC_2.0/aAnoBae1_hap1.yml (view)
species: Anomaloglossus baeobatrachus
specimen: aAnoBae1
projects: 
  - vgp
assembled_by_group: Rockefeller
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/assembly_vgp_HiC_2.0/aAnoBae1.HiC.hap1.20230617.fasta.gz
hap2: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/assembly_vgp_HiC_2.0/aAnoBae1.HiC.hap2.20230617.fasta.gz
pretext_hap1: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/aAnoBae1_hap1_s2.pretext
pretext_hap2: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/aAnoBae1_hap2_s2.pretext
kmer_spectra_img: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/assembly_vgp_HiC_2.0/evaluation/merqury/aAnoBae1_png/
pacbio_read_dir: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Anomaloglossus_baeobatrachus/aAnoBae1/genomic_data/arima/
pipeline: 
  - hifiasm (1.2a.2+galaxy1)
  - yahs (1.2a.2+galaxy1)
notes: This was a Hifiasm-HiC assembly of aAnoBae1, resulting in two complete haplotypes. HiC scaffolding was performed with YaHS.  The HiC prep kit used was Swift-IDT. 
Data Use Policy

Samples and data come from a variety of sources. To support fair and productive use of this data, please abide by the Data Use Policy and contact Erich D. Jarvis, ejarvis@rockefeller.edu, with any questions.