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Pipeline for SNP analysis
Pipeline V2 (from Fasta)
Pipeline V3 (from VCF)
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sNMF
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PCA / IBS matrix (plink)
Distance tree (FastME)
Association Studies
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Project overview
Choose a species:
eremocitrus_glauca
Citrus
citrus_micrantha
citrus_medica
lasiodiplodia
my_species
Grapevine_v2
citrus_maxima
Poncirus
citrus_sinensis_GCA_022201065
citrus_clementina
citrus_reticulata
oryza_sativa_MSU7
hevea_brasiliensis
Microcitrus
Filter on project:
371Var_CITRE
3K_RGP
67accessions
AfricanRice
bds
chloro_mil
Chloro_mito
chloro_podo
chloro_rice
chloro_yam
CITMA
CITME
CITME_83accessions
CITMI
CITRE
Clementina_preHLB
Clementina_preHLB_53
Dynamo_MareDiAgrumini
Dynamo_MareDiAgrumini.filtered
Eremocitrus
far
fusionADNancien
fusion_poncirus
fusion_vcf_ADNancien
GALAXY_ARIGU
GALAXY_SYZLO
GBShybrids
GBSJanv2023
GBS_Ahmed_et_al_2019
GBS_Carto
GBS_Carto_Diversite
GBS_Diversite
GBS_Fort-Microcitrus-Fund
GBS_Fort-Microcitrus-Fund2
GBS_hybrids
GBS_HybSom_2022
GBS_Hyb_Eremo_Pl5Pl6
GBS_Microcitrus
GBS_Microcitrus_hybrids
GBS_pop3X_lime
GBS_pop_triploides_lime
GBS_Volkameriana_X_Citrumelo4475
HerbierPhim1
hevea
ilana_choulet_2023
lasiodiplodia2_GBS
lasiodiplodia_GBS
melimelo
MicrocitrusSNP
MicrocitrusSNP_116ind
MicrocitrusSNP_99ind
mito
preHLB
project_test
rice_YYT
rogier_filterdp3
rogier_filterdp5
Rutaceae_cytoplasme
Rutaceae_nucleaire
scaffolds_redondants
SYZLO-20171121
SYZLO-TB-denovo-SNPeff-20171121
taro_amplicon
TEST
Tisochrysis_lutea
triallelic
TSC
variants
variant_dec
WGS_116ind
WGS_284accessions
WGS_285accessions
WGS_285accessions_ChloroMito
WGS_321accessions
WGS_321accessions_ChloroMito
WGS_331_cytoplasme
WGS_331_ref_clem
WGS_361ind
WGS_361ind_cytoplasm
WGS_citrus
WGS_Related_Genera
WGS_Related_Genera_62accessions
WGS_Related_Genera_62ind_ChloroMito
WGS_Related_Genera_81ind