cometadata/datacite-titles-descriptions-related-identifiers huggingface dataset:
DOI: 10.15454/eptdos/t2tyup
title: finalAnnot.perConsensusStats.txt

description: Per-TE-consensus statistics e.g number of copies, TE class and order, copies length/identity statistics, etc.
DOI: 10.15454/eptdos/t9hpym
title: TEannot.cfg

description: TE annot pipeline configuration file with parameters values. Mandatory for TEdenovo pipeline execution. For more information, see : https://urgi.versailles.inra.fr/Tools/REPET https://urgi.versailles.inra.fr/Tools/REPET/TEannot-tuto
DOI: 10.15454/eptdos/tgghcq
title: Meloidogyne_incognita_V3_20131230.fa.shortheaders.60ntPerLine

description: M. incognita's genome from (Blanc-Mathieu. et al., 2017)
DOI: 10.15454/eptdos/tnicap
title: finalAnnot.bed

description: :unav
DOI: 10.15454/eptdos/v0mqrc
title: finalAnnot.perConsensusStats.txt

description: Per-TE-consensus statistics e.g number of copies, TE class and order, copies length/identity statistics, etc.
DOI: 10.15454/eptdos/xjufkj
title: REPETpostAnal-V1.0.4.py

description: In-house python (&gt;= 3) script. Requires as input i) REPET draft TE-annotation output (.gff3), ii) the TE-consensus library used for the annotation, iii) the genome fasta file. Default parameters are set for stringent filtering post-processing (e.g canonical TE-annotations). External Dependencies: bedtools (&gt;= 2), blast+, bash. Required python libraries: subprocess, os, sys, re, pandas, argparse, numpy, Bio (SeqIO).
DOI: 10.15454/eptdos/yd5tyc
title: TEdenovo.cfg

description: TE denovo pipeline configuration file with parameters values. Mandatory for TEdenovo pipeline execution. For more information, see : https://urgi.versailles.inra.fr/Tools/REPET https://urgi.versailles.inra.fr/Tools/REPET/TEdenovo-tuto
DOI: 10.15454/eptdos/ypcvf1
title: genome_chr_length.bed

description: :unav
DOI: 10.15454/eptdos/z78mnd
title: minc_v3.TEannotation.19-07-19.filtered.classiffiedOnly.minLen250.minId85.minConsCov33.blastVsCons.noOverlap.bed

description: canonical TE annotation file extracted from the draft TE annotation (bed format) using REPETpostAnal-V1.0.5.py
DOI: 10.15454/eptdos/zaazhn
title: mincV3XA2_draftAnnot.19-07-19.sorted.gff3

description: draft TE annotation (REPET output; gff3 format)
DOI: 10.15454/eptdos/zbqxmp
title: minc_v3.TEannotations.19-07-19.filtered_classiffiedOnly.minLen250.minId85.minConsCov33.blastVsCons.noOverlap.bed

description: canonical TE annotation file extracted from the draft TE annotation (bed format) using REPETpostAnal-V1.0.5.py
DOI: 10.15454/eqp1bv/iw0zgm
title: Etude_4p1000_donnees_regionales_bilanGES_LB -20210222.tab

description: Bilan GES régional des pratiques stockantes pour les simulations du modèle BANCO.
DOI: 10.15454/eqp1bv/pv8oqv
title: Etude_4p1000_sortiesMACC_LB.tab

description: Sorties des simulations du modèle BANCO ayant permis de générer la courbe de coût marginal de stockage additionnel de carbone dans le sol (MACC), et bilan GES (hors stockage C et complet) en différents points de coupe de la MACC présentés dans la synthèse et le rapport de l'étude.
DOI: 10.15454/eqp1bv/vsmzm5
title: Etude_4p1000_donnees_regionales_pour_simulations_BANCO-LB_20210222.tab

description: Données d’entrée du modèle BANCO pour l’allocation coût efficace de l’effort de stockage : coût technique, assiette maximale technique et potentiel de stockage additionnel de carbone dans le sol par pratique et par région.
DOI: 10.15454/ermty9/vkutd9
title: rpg_complete_2019_d51.zip

description: :unav
DOI: 10.15454/et8mje/jufb4h
title: Genetic map of Miscanthus sinensis - SiA population.tab

description: Miscanthus sinensis genetic map
DOI: 10.15454/et8mje/x0jbyg
title: README_genotyping.docx

description: README file for the description of the genetic map and its development
DOI: 10.15454/etbwep/bxdxqe
title: metadata.tab

description: Information about specimens in the RAD sequencing experiment
DOI: 10.15454/etbwep/hx8v25
title: popmap.txt

description: Popmap used in STACKS
DOI: 10.15454/etbwep/yqpxrx
title: Xylosandruscompactus.vcf

description: Xylosandrus compactus' loci
DOI: 10.15454/etbwep/zrgnrt
title: Ambrosiellaxylebori.vcf

description: Ambrosiella xylebori's loci
DOI: 10.15454/etbwep/zvg1es
title: metadata-RADseq-Xylosandrus-compactus.tab

description: Information about specimens used in the RAD experiment
DOI: 10.15454/eusw2j/0fk4n7
title: MURAL CS Belgium.pdf

description: :unav
DOI: 10.15454/eusw2j/4e0gck
title: MURAL CS Switzerland.pdf

description: :unav
DOI: 10.15454/eusw2j/ankwzl
title: MURAL CS Greece.pdf

description: :unav
DOI: 10.15454/eusw2j/eiuka9
title: MURALS CS Austria.pdf

description: :unav
DOI: 10.15454/eusw2j/maunq5
title: MURAL CS Sweden.pdf

description: :unav
DOI: 10.15454/eusw2j/vyjaxh
title: MURAL CS France.pdf

description: :unav
DOI: 10.15454/evlgra/dcsajo
title: 19_04_24_N2O_2010_2016.tab

description: :unav
DOI: 10.15454/evlgra/erdwfk
title: 19_04_24_ADM_N_plant_20009_2016.tab

description: :unav
DOI: 10.15454/evlgra/gtxyxg
title: 19_04_24_CLIMATIC_2009_2016.xls

description: :unav
DOI: 10.15454/evlgra/k9tc6n
title: 21_06_30_Soil_N_2009_2016.tab

description: :unav
DOI: 10.15454/evlgra/reqsad
title: 21_06_30_ADM_N_PLANT_2009_2016.tab

description: :unav
DOI: 10.15454/evlgra/tea15k
title: 21_06_30_CLIMATIC_2009_2016.xls

description: :unav
DOI: 10.15454/evlgra/tro7km
title: 19_04_24_ITK_2009_2006.tab

description: :unav
DOI: 10.15454/evlgra/ukcemv
title: 21_06_30_ITK_2009_2016.tab

description: :unav
DOI: 10.15454/evlgra/vfolmf
title: 21_06_30_N2O_2010_2016.tab

description: :unav
DOI: 10.15454/evlgra/y7qkvo
title: 19_04_24_Soil_N_2009_2016.tab

description: :unav
DOI: 10.15454/ew0ehv/3ndtpm
title: rpg_complete_2019_d24.zip

description: :unav
DOI: 10.15454/ewjct8/0jkv4x
title: TEbasedTree.morelosAndBrasilianIsolates.NJ.1000bootstraps.nwk

description: :unav
DOI: 10.15454/ewjct8/1zyz3r
title: Fig4_tree.pdf

description: :unav
DOI: 10.15454/ewjct8/3evle7
title: PolyCatPerOrder.tsv

description: :unav
DOI: 10.15454/ewjct8/3wdfa9
title: morelosAndIsolates.FR.poly.filtered.heterogeneous_intersecting_genes.tsv

description: :unav
DOI: 10.15454/ewjct8/4ejnet
title: mincognita_TE-annotaion_filtered_no-class-1-or-2.bed

description: :unav
DOI: 10.15454/ewjct8/4yslca
title: Fig5_poly_types.pdf

description: :unav
DOI: 10.15454/ewjct8/5avwbp
title: supp_Fig_freq_tree_withBranchLength.pdf

description: :unav
DOI: 10.15454/ewjct8/5gfi3a
title: Fig6_poly_count.pdf

description: :unav
DOI: 10.15454/ewjct8/5jovhv
title: closest_genes_but_not_overlapping.morelosAndIsolates.FR.poly.filtered.highlyContrasted.distInf1kb.tsv

description: :unav
DOI: 10.15454/ewjct8/5qy9tf
title: analysis.subsampled15X.teinsertions

description: :unav
DOI: 10.15454/ewjct8/5rpn9o
title: supp_Fig_pipeline.pptx

description: :unav
DOI: 10.15454/ewjct8/6rbep8
title: TEs_with_genes_inside.more95pctOfGeneSize.genesWithAtLeastOneTErelatedDomain.tab

description: :unav
DOI: 10.15454/ewjct8/7fgkrk
title: supp_Table_draft_annot_Celegans.tab

description: :unav
DOI: 10.15454/ewjct8/7hhgxp
title: readme.txt

description: :unav
DOI: 10.15454/ewjct8/7kdfhu
title: g986.png

description: :unav
DOI: 10.15454/ewjct8/8gmzno
title: intersect_for_chara.morelosAndIsolates.FR.poly.extra_detections_AND_minc_v3_draftAnnot.19-07-19.sorted.intersect

description: :unav
DOI: 10.15454/ewjct8/8sdqjp
title: finalAnnot.perConsensusStats.txt

description: :unav
DOI: 10.15454/ewjct8/9n2sex
title: morelosAndIsolates.FR.poly.filtered.bed_intersecting_genes.tsv

description: :unav
DOI: 10.15454/ewjct8/9utplg
title: closest_genes_but_not_overlapping.morelosAndIsolates.FR.poly.filtered.bed.distInf1kb.tsv

description: :unav
DOI: 10.15454/ewjct8/agswi4
title: genesWithBothTypesOfDomains.minc_v3.txt

description: :unav
DOI: 10.15454/ewjct8/alymds
title: celegans.TEannotation.10-01-20.defragmentedDraftAnnot.bed

description: :unav
DOI: 10.15454/ewjct8/axbvjq
title: draft_Fig1_canonical_TE_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/bbu1oy
title: closest_genes_but_not_overlapping.morelosAndIsolates.FR.poly.filtered.heterogeneous.distInf1kb.tsv

description: :unav
DOI: 10.15454/ewjct8/biequg
title: celegans.TEannotation.10-01-20.filtered.classiffiedOnly.minLen250.minId85.minConsCov33.blastVsCons.noOverlap.bed

description: :unav
DOI: 10.15454/ewjct8/bkg4o3
title: genes_potentially_impacted_by_HCPTEs.expressionLevels.substentiallyExpressed.tab

description: :unav
DOI: 10.15454/ewjct8/btqx4q
title: supp_Table_canonical_annot_celegans.tab

description: :unav
DOI: 10.15454/ewjct8/bw4x31
title: draft_SNP_tree_WO_branchLength.svg

description: :unav
DOI: 10.15454/ewjct8/bynttq
title: readme.txt

description: :unav
DOI: 10.15454/ewjct8/dafej2
title: fig_8_insertion.pptx

description: :unav
DOI: 10.15454/ewjct8/damt0r
title: supp_Fig_decision_tree.pdf

description: :unav
DOI: 10.15454/ewjct8/dihjkh
title: median_FPKM.txt

description: :unav
DOI: 10.15454/ewjct8/dkjdep
title: genesWithoutTErelatedDomains.minc_v3.txt

description: :unav
DOI: 10.15454/ewjct8/dmb5mg
title: Extra-detection_not_intersecting_draft-annot.tab

description: :unav
DOI: 10.15454/ewjct8/ee3ytx
title: TE_polymorphism_workflow.Rmd

description: the global analysis workflow. Main file of the study.
DOI: 10.15454/ewjct8/eid7jn
title: Fig4_tree.svg

description: :unav
DOI: 10.15454/ewjct8/ekrvhs
title: morelosAndIsolates.FR.bed

description: :unav
DOI: 10.15454/ewjct8/f2s3dp
title: minc_v3.TEannotation.19-07-19.filtered.classiffiedOnly.minLen250.minId85.minConsCov33.blastVsCons.noOverlap.bed

description: :unav
DOI: 10.15454/ewjct8/f3qqyt
title: Meloidogyne_incognita_V3_20131230.fa.shortheaders.60ntPerLine

description: :unav
DOI: 10.15454/ewjct8/ffcsgd
title: minc_v3.TEannotation.19-07-19.defragmentedDraftAnnot.bed

description: :unav
DOI: 10.15454/ewjct8/fkozdt
title: draft_tree.svg

description: :unav
DOI: 10.15454/ewjct8/gbbcwo
title: supp_Fig_chiSqResiduals.pdf

description: :unav
DOI: 10.15454/ewjct8/gdk3mf
title: analysis.subsampled15X.teinsertions

description: PopoolationTE2 output file containing all the potential TE polymorphisms across the 12 M. incognita's isolates. Each line describes a potential polymorphic locus. Mains information: i) the position of the detected potential polymorphic sites, ii) the TE-consensus to which the polymorphic copy is linked, iii) the estimated TE frequency in each population/isolate/sample. See https://sourceforge.net/p/popoolation-te2/wiki/TE%20insertion%20file/ for a detailed explanation.
DOI: 10.15454/ewjct8/gezyek
title: finalAnnot.perCopyStats.txt

description: :unav
DOI: 10.15454/ewjct8/gil23b
title: readme.txt

description: :unav
DOI: 10.15454/ewjct8/gkszfe
title: supp_Fig_freq_tree_withBranchLength.svg

description: :unav
DOI: 10.15454/ewjct8/h4pqzo
title: supp_Fig_SNP_tree_withBranchLength.pdf

description: :unav
DOI: 10.15454/ewjct8/hehxex
title: TE_polymorphism_across_Mincognita_isolates_global_workflow.Rmd

description: :unav
DOI: 10.15454/ewjct8/ia7nbs
title: morelosAndIsolates.FR.poly.filtered.heterogeneous.bed

description: :unav
DOI: 10.15454/ewjct8/ilrylx
title: supp_Table_draft_annot_mincognita.tab

description: :unav
DOI: 10.15454/ewjct8/j8ntiw
title: Fig2_copies_identity_distribution.svg

description: :unav
DOI: 10.15454/ewjct8/juhqop
title: minc_v3.genes.sorted.bed

description: :unav
DOI: 10.15454/ewjct8/jvots1
title: supp_Fig_TE_distribution_celegans.pdf

description: :unav
DOI: 10.15454/ewjct8/kaahsj
title: supp_Fig_copies_length_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/kaw6dp
title: TEs_with_genes_inside.more95pctOfGeneSize.tab

description: :unav
DOI: 10.15454/ewjct8/kf0ot2
title: Fig7_upset_HCPTEs.svg

description: :unav
DOI: 10.15454/ewjct8/kqt23f
title: finalAnnot.perConsensusStats.txt

description: :unav
DOI: 10.15454/ewjct8/kts7ck
title: finalAnnot.perCopyStats.txt

description: :unav
DOI: 10.15454/ewjct8/lbfdev
title: draft_freq_tree_WO_branchLength.svg

description: :unav
DOI: 10.15454/ewjct8/ldn1gu
title: TEs_wit_expressed_transposition_machinery.tab

description: :unav
DOI: 10.15454/ewjct8/lrbvsk
title: Fig3_TE_frequency_distribution.svg

description: :unav
DOI: 10.15454/ewjct8/m223jj
title: non-polymorphic-ref-annotations.tab

description: :unav
DOI: 10.15454/ewjct8/mclfnl
title: genesWithOnlyTErelatedDomains.minc_v3.txt

description: :unav
DOI: 10.15454/ewjct8/mlg7ul
title: supp_Fig_TE_distribution_celegans.svg

description: :unav
DOI: 10.15454/ewjct8/mvgxv5
title: draft_Fig7_upset_HCPTEs.pdf

description: :unav
DOI: 10.15454/ewjct8/ocm6on
title: draft_supp_Fig_copies_length_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/ocno1j
title: finalAnnot.StatsTE.stats

description: :unav
DOI: 10.15454/ewjct8/ohkxtq
title: draft_Fig6_poly_count.pdf

description: :unav
DOI: 10.15454/ewjct8/opnupn
title: chiSqResiduals.pdf

description: :unav
DOI: 10.15454/ewjct8/oxe42m
title: supp_Fig_copies_length_distribution.svg

description: :unav
DOI: 10.15454/ewjct8/pe8e8w
title: morelosAndIsolates.FR.poly.filtered.highlyContrasted.bed

description: :unav
DOI: 10.15454/ewjct8/pgr5el
title: finalAnnot.StatsTE.stats

description: :unav
DOI: 10.15454/ewjct8/pinlvu
title: Fig5_poly_types.pptx

description: :unav
DOI: 10.15454/ewjct8/plhztp
title: supp_Fig_decision_tree.pptx

description: :unav
DOI: 10.15454/ewjct8/pqgcii
title: supp_Fig_SNP_tree_withBranchLength.svg

description: :unav
DOI: 10.15454/ewjct8/pzedsm
title: Fig2_copies_identity_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/q1ti6k
title: minc_v3.genes.sorted.expressionLevels.tab

description: :unav
DOI: 10.15454/ewjct8/qkuq7c
title: draft_SNP_tree_withBranchLength.svg

description: :unav
DOI: 10.15454/ewjct8/qob1yc
title: for_chara.morelosAndIsolates.FR.poly.extra_detections.bed

description: :unav
DOI: 10.15454/ewjct8/qperh4
title: lst_genes_potentially_impacted_by_HCPTEs.txt

description: :unav
DOI: 10.15454/ewjct8/qqpixn
title: Fig_identity_f_coverage.withCorTes.svg

description: :unav
DOI: 10.15454/ewjct8/qqtphn
title: draft_supp_Fig1_TE_distribution_celegans.pdf

description: :unav
DOI: 10.15454/ewjct8/qvsw9m
title: PopolationTE2_analysis.Rmd

description: popoolationTE2 workflow used to detect polymorphism across M. incognita's isolates and evaluate the tool error rate
DOI: 10.15454/ewjct8/qwrfh1
title: morelosAndIsolates.FR.poly.filtered.bed

description: :unav
DOI: 10.15454/ewjct8/qz3h4v
title: draft_Fig_identity_f_coverage.pdf

description: :unav
DOI: 10.15454/ewjct8/r3a5hn
title: genes_with_TE_related_domains.txt

description: :unav
DOI: 10.15454/ewjct8/riqcfe
title: Fig3_TE_frequency_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/s3uwxa
title: minc_v3.TEannotation.19-07-19.filtered.classiffiedOnly.minLen250.minId85.minConsCov33.blastVsCons.noOverlap.bed

description: :unav
DOI: 10.15454/ewjct8/s5drvm
title: finalAnnot.StatsTE.stats

description: :unav
DOI: 10.15454/ewjct8/si38b1
title: Table1_genome_proportion.tab

description: :unav
DOI: 10.15454/ewjct8/twevid
title: Fig_identity_f_coverage.withCorTes.pdf

description: :unav
DOI: 10.15454/ewjct8/ty0qrw
title: draft_freq_tree_withBranchLength.svg

description: :unav
DOI: 10.15454/ewjct8/tycsuq
title: empty_file.txt

description: :unav
DOI: 10.15454/ewjct8/tyyhfh
title: TE_polymorphism_across_Mincognita_isolates_global_workflow.Rmd

description: The global analysis workflow. Main file of the study.
DOI: 10.15454/ewjct8/uj8r9v
title: supp_Fig_pipeline.pdf

description: :unav
DOI: 10.15454/ewjct8/uosyvq
title: Fig7_upset_HCPTEs.pdf

description: :unav
DOI: 10.15454/ewjct8/uzd5o5
title: Fig1_canonical_TE_distribution.svg

description: :unav
DOI: 10.15454/ewjct8/wtmc9m
title: morelosAndIsolates.FR.poly.refPolymorphismAndMissmatch.bed

description: :unav
DOI: 10.15454/ewjct8/wy9sl8
title: draft_Fig3_TE_frequency_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/xs0fof
title: draft_Fig_identity_f_coverage.withCorTes.pdf

description: :unav
DOI: 10.15454/ewjct8/xsameg
title: supp_Fig_chiSqResiduals.svg

description: :unav
DOI: 10.15454/ewjct8/y1d8wl
title: snp_matrix.fasta.variable_sites.fasta.raxml.support

description: :unav
DOI: 10.15454/ewjct8/yasirl
title: draft_Fig2_copies_identity_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/ytkwpm
title: morelosAndIsolates.FR.poly.filtered.highlyContrasted_intersecting_genes.tsv

description: :unav
DOI: 10.15454/ewjct8/yyfa1y
title: PopolationTE2_analysis.Rmd

description: :unav
DOI: 10.15454/ewjct8/z39hg8
title: create_tehier_file_V-09-08-19.py

description: :unav
DOI: 10.5281/zenodo.6383101
title: Data for "Scaling of electron heating by magnetization during reconnection and applications to dipolarization fronts and super-hot solar flares"

description: Dataset for the figures used in the paper
DOI: 10.15454/ewjct8/z9pxay
title: Fig6_poly_count.svg

description: :unav
DOI: 10.15454/ewjct8/zm6gtz
title: Fig1_canonical_TE_distribution.pdf

description: :unav
DOI: 10.15454/ewjct8/zung1p
title: minc_v3.genes.sorted.expressionLevels.substentiallyExpressed.tab

description: :unav
DOI: 10.5281/zenodo.6383100
title: Data for "Scaling of electron heating by magnetization during reconnection and applications to dipolarization fronts and super-hot solar flares"

description: Dataset for the figures used in the paper
DOI: 10.15454/ewl5xr/23cplg
title: data_PDS_behavior_observations.tab

description: Behavioral observations during the tests
DOI: 10.15454/ewl5xr/kmoylh
title: data_PDS_synchronised_RR-1.tab

description: This hseet gives for each poney the registered RR intervals from the Polar data. XXX_t gives the time points in seconds for poney n°XXX and XXX_RR gives the RR intervals in seconds registered at each time point. t=0 corresponds to the start of
DOI: 10.15454/ewl5xr/nm4agh
title: data_PDS_behaviour_observations.tab

description: Behavioral observations during the tests of this study
DOI: 10.15454/ewl5xr/p8ndpe
title: data_PDS_experimental_groups_and_film_sections_info.tab

description: Information on experimental groups composition and characteristics of the films viewed by each group
DOI: 10.15454/ewl5xr/xwmg1l
title: data_PDS_experimental_groups_and_film_sections_info.tab

description: Information on experimental groups composition and characteristics of the films viewed by each group
DOI: 10.15454/ewsd6v/sqppdl
title: rpg_complete_2019_d15.zip

description: :unav
DOI: 10.15454/exdcht/0x1r13
title: rpg_complete_2019_d27.zip

description: :unav
DOI: 10.15454/eyabb2/1ircff
title: dataset-2_lot2C_imb-t0_0301.dps

description: :unav
DOI: 10.15454/eyabb2/28qcc6
title: dataset-2_lot2D_imb-t0_0178.dps

description: :unav
DOI: 10.15454/eyabb2/3g25wg
title: dataset-2_lot2D_imb-t0_0167.dps

description: :unav
DOI: 10.15454/eyabb2/4k5hwj
title: dataset-2_lot2C_imb-t0_0517.dps

description: :unav
DOI: 10.15454/eyabb2/4mijlr
title: dataset-2_lot2D_imb-H23_0166.dps

description: :unav
DOI: 10.15454/eyabb2/4y35gv
title: dataset-2_lot2C_imb-t0_0258.dps

description: :unav
DOI: 10.15454/eyabb2/5utwfd
title: dataset-2_lot2D_imb-t0_0186.dps

description: :unav
DOI: 10.15454/eyabb2/5vhtvb
title: dataset-2_lot2D_imb-t0_0335.dps

description: :unav
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DOI: 10.15454/eyabb2/gjcmqc
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DOI: 10.15454/eyabb2/j6gcnm
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DOI: 10.15454/eyabb2/jejdby
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