37 skills found · Page 1 of 2
miriammiyagi / QuIBLQuantifying Introgression via Branch Lengths
LauritsSkov / Introgression DetectionNo description available
jbpease / DfoilDFOIL: Introgression Testing for Five Taxa
mmatschiner / F4Assessing confidence in introgression among four populations
sivasubramanics / KcftoolsRapid alignment-free method for introgression screening and GWAS using k-mer profiles
kr-colab / FILETSoftware for detecting introgression using supervised machine learning
Shuhua-Group / ArchaicSeeker2.0ArchaicSeeker is a series of software for detecting archaic introgression sequences and reconstructing introgression history. The latest version of this series, ArchaicSeeker 2.0, has the following three notable improvements compared with the original version of this software. First, it can automatically determine the boundary of each introgressed sequence. Next, it is capable of tracing both known and unknown ancestral sources of a given introgressed sequence. Finally, it has the ability to reconstruct the introgression history with more sophisticated introgression models.
jesvedberg / Ancestry HMM SAncestry_HMM-S is program designed to infer adaptive introgression from population genomic data
simonhmartin / DfsD Frequency Spectrum: Signatures of introgression across the allele frequency spectrum
HongboDoll / PotatoNLRomeWe report a section-wide NLRome for the tuber-bearing section Petota, including the most important non-cereal food crop potato. Evolutionary genomics and functional analyses discover new late blight-resistant genes, presenting potential for resistance introgression and/or stacking in hybrid potato breeding.
grahamgower / GenomatnnPredicts adaptive introgression using a CNN trained on genotype matrices.
btmartin721 / ClineHelpRDetects Outliers and plots genomic clines from BGC output, and extends the plotting functionality of INTROGRESS to Correlate genomic clines and hybrid indices with Environmental Variables
YingDings / Introgression Detection MethodsNo description available
Chenghong412 / Sheep IntrogressionNo description available
johnomics / Martin Davey Jiggins Evaluating Introgression StatisticsCode and data for "Evaluating statistics for the identification of introgressed loci" by Simon H. Martin, John W. Davey and Chris D. Jiggins.
xin-huang / SstarDetecting Archaic Introgression from Population Genetic Data with S*
IsmailM / Introgression TutorialA tutorial on genomic tests for introgression
mhibbins / D3 IntrogressionScripts relevant to Hahn & Hibbins D3 introgression statistic
NikolayOskolkov / LSTMNeanderthalDNAImplementation of LSTM for detecting regions of Neanderthal introgression in modern human genomes
sungaofei / 3K TCGModern cultivated tetraploid cottons contain two species, Gossypium barbadense and Gossypium hirsutum. Among them, G. hirsutum is the significant species cultivated worldwide and contributes more than 90% natural fiber for the industry. To completely reveal the genetic diversity and population divergence within cultivated tetraploid cotton, we resequenced more than 1,700 accessions, which mostly included the South-China landraces, the elite introgression lines, and the obsoleted historic varieties. After integrating them with the major public resequencing data (PRJNA257154, PRJNA336461, PRJNA375965, PRJNA399050, and PRJNA414461), we obtained a whole Genebank variation map contained 3,248 tetraploid cottons (included 2,922 G. hirsutum). This variation map covered more than 1/3 of current G. hirsutum Genebank in China (~9,000 accessions), which could represent the genetic diversity of G. hirsutum.
