Pinned Repositories
assembly_improvement
attrna.github.io
awesome-self-supervised-gnn
Papers about pretraining and self-supervised learning on Graph Neural Networks (GNN).
cDNA_Cupcake
Miscellaneous collection of Python and R scripts for processing Iso-Seq data
codon_degeneracy
diploSHIC
docker-ngs-tools
A catalogue of docker images for NGS data analysis tools
easySFS
Effective selection of population size projection for construction of the site frequency spectrum. Convert VCF to dadi/fastsimcoal style SFS for demographic analysis
popGenMachineLearningExamples
simple examples of using supervised machine learning for population genetics inference
attrna's Repositories
attrna/popGenMachineLearningExamples
simple examples of using supervised machine learning for population genetics inference
attrna/assembly_improvement
attrna/cDNA_Cupcake
Miscellaneous collection of Python and R scripts for processing Iso-Seq data
attrna/docker-ngs-tools
A catalogue of docker images for NGS data analysis tools
attrna/evonet
attrna/funannotate
Eukaryotic Genome Annotation Pipeline
attrna/genotype-phenotype-notebooks
Continually updated data science Python notebooks: Deep learning (TensorFlow, Theano, Caffe), scikit-learn, Kaggle, big data (Spark, Hadoop MapReduce, HDFS), matplotlib, pandas, NumPy, SciPy, Python essentials, AWS, and various command lines.
attrna/go_enrichment
Transcripts annotation and GO enrichment Fisher tests
attrna/gt-dimred
Genotype dimension reduction research
attrna/HMMERCTTER
HMMER Cut-off Threshold Tool (HMMERCTTER): Supervised Classification of Superfamily Protein Sequences with a reliable Cut-off Threshold
attrna/IsoSeq_SA3nUP
Documentation and Developers Code Base for Iso-Seq SMRTAnalysis 3.x and beyond
attrna/LDhat_workflow
attrna/LDJump
R Package to Estimate Variable Recombination Rates using Population Genetic Data
attrna/ltrsift
semi-automatic classification and postprocessing of LTR retrotransposons
attrna/multipool
High-resolution genetic mapping for pooled sequencing.
attrna/pico_galaxy
Galaxy tools and wrappers for sequence analysis
attrna/pop_gen_cnn
attrna/Popgen_EVE102_2012
Pdfs of slides from 2018 popgen course
attrna/pyjar
A python implementation of the joint ancestral state reconstruction algorithm of Pupko et al
attrna/rename_files
This script changes Illumina file prefixes to the sample ids from the table.
attrna/sga
de novo sequence assembler using string graphs
attrna/statements
Successful Job Applications and Grants
attrna/tama
Transcriptome Annotation by Modular Algorithms (for Iso-Seq data)
attrna/xoi
R/xoi: Tools for analyzing crossover interference
attrna/xQTLstats
X-QTL statistics R package