Leptosomus discolor

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Raw Data by Technology
Datatype Individual Bases Coverage Bytes Access
PacBio HiFi (.fq) bLepDis1 67.79 Gbp N/A 52.0 GiB
Arima bLepDis1 65.33 Gbp N/A 34.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 16 May 2023.
Raw Data by Individual
Individual Datatype Bases Coverage Bytes Access
bLepDis1 PacBio HiFi (.fq) 67.79 Gbp N/A 52.0 GiB
Arima 65.33 Gbp N/A 34.8 GiB
Bases and Coverage are approximate.
Coverage based on genome size .
Last upload on 16 May 2023.
Assemblies
Individual 1 Haplotype 1 Assembly
Version assembly_curated from 1 August 2023
bLepDis1.hap1.cur.20230801.fasta.gz (375.3 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 6 20.19 Mbp 1 219.10 Mbp
20 13 16.74 Mbp 2 128.45 Mbp
30 22 12.93 Mbp 3 94.82 Mbp
40 33 10.08 Mbp 5 83.83 Mbp
50 48 8.03 Mbp 6 82.11 Mbp
60 67 5.71 Mbp 8 66.65 Mbp
70 93 4.63 Mbp 10 49.61 Mbp
80 126 3.55 Mbp 16 19.00 Mbp
90 179 1.70 Mbp 27 7.22 Mbp
100 625 11.89 Kbp 335 11.89 Kbp
1.000x 625 1.33 Gbp 335 1.33 Gbp
NG based on genome size .
Individual 1 Haplotype 2 Assembly
Version assembly_curated from 2 August 2023
bLepDis1.hap2.cur.20230802.fasta.gz (372.4 MiB)

Quality: not computed

Contigs Scaffolds
NG LG Len LG Len
10 5 23.16 Mbp 1 219.33 Mbp
20 11 18.73 Mbp 2 128.35 Mbp
30 19 15.34 Mbp 3 94.22 Mbp
40 29 11.01 Mbp 5 83.84 Mbp
50 43 8.83 Mbp 6 82.12 Mbp
60 60 7.28 Mbp 8 66.57 Mbp
70 81 5.26 Mbp 10 49.44 Mbp
80 111 3.55 Mbp 16 19.45 Mbp
90 161 1.81 Mbp 26 8.63 Mbp
100 548 11.84 Kbp 277 11.84 Kbp
1.000x 548 1.33 Gbp 277 1.33 Gbp
NG based on genome size .
Individual 1 Mitochondrial Assembly
Version assembly_MT_rockefeller from 17 June 2023
bLepDis1.MT.20230617.fasta.gz (5.7 KiB)

Quality: not computed
Assembly Metadata
assembly_vgp_HiC_2.0/bLepDis1_hap1.yml (view)
species: Leptosomus discolor
specimen: bLepDis1
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap1
hap1: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/bLepDis1.HiC.hap1.20230617.fasta.gz
hap2: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/bLepDis1.HiC.hap2.20230617.fasta.gz
pretext_hap1: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bLepDis1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bLepDis1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/merqury/bLepDis1_png/
mito: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_MT_rockefeller/bLepDis1.MT.20230617.fasta.gz
pacbio_read_dir: s3://genomeark/species/Leptosomus_discolor/bLepDis1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Leptosomus_discolor/bLepDis1/genomic_data/arima/
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bLepDis1, resulting in two complete haplotypes. This individual did have not bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2. The kmer spectra indicate a homogametic specimen. I am submitting both hap1 & hap2 for dual curation. This is a VGP Phase 1 species. This is the curation ticket for hap1. 
assembly_vgp_HiC_2.0/bLepDis1_hap2.yml (view)
species: Leptosomus discolor
specimen: bLepDis1
projects: 
  - vgp
data_location: S3
release_to: S3
haplotype_to_curate: hap2
hap1: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/bLepDis1.HiC.hap1.20230617.fasta.gz
hap2: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/bLepDis1.HiC.hap2.20230617.fasta.gz
pretext_hap1: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/hap1/pretext/bLepDis1_hap1__s2_heatmap.pretext
pretext_hap2: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/hap2/pretext/bLepDis1_hap2__s2_heatmap.pretext
kmer_spectra_img: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_vgp_HiC_2.0/evaluation/merqury/bLepDis1_png/
mito: s3://genomeark/species/Leptosomus_discolor/bLepDis1/assembly_MT_rockefeller/bLepDis1.MT.20230617.fasta.gz
pacbio_read_dir: s3://genomeark/species/Leptosomus_discolor/bLepDis1/genomic_data/pacbio_hifi/
pacbio_read_type: hifi
hic_read_dir: s3://genomeark/species/Leptosomus_discolor/bLepDis1/genomic_data/arima/
pipeline:
  - hifiasm (0.19.3+galaxy0)
  - yahs (1.2a.2+galaxy1)
assembled_by_group: Rockefeller
notes: This was a hifiasm-HiC assembly of bLepDis1, resulting in two complete haplotypes. This individual did have not bionano data. HiC scaffolding was performed with yahs. The HiC prep was Arima kit 2. The kmer spectra indicate a homogametic specimen. I am submitting both hap1 & hap2 for dual curation. This is a VGP Phase 1 species. This is the curation ticket for hap2. 
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.