NAMlab's repositories
19_mlcb
Code for Tareen & Kinney (MLCB 2019) https://doi.org/10.1101/835942
Aiyesa_Tomato_Differential_Gene_Expression_Analysis
Internship project aimed at identifying and investigating deferentially expressed genes in tomato (S.lycopersicum) using available data on heat stress experiment from online database.
inference-of-GRN-using-Fused-LASSO
Gene regulatory network inference using fused LASSO on multiple data sets: application to Escherichia coli
tomato-rna-meta
Data, code, and results for our paper Identification of core, conditional and crosstalk components of tomato heat stress response using integrative transcriptomics and orthology (DOI coming). If you use any of our code or results in a scientific publication, we would be grateful if you cite the paper.
variant-caller
Variant Calling Pipeline Using GATK4 and Nextflow
2024_Intro_RNAseq_Analysis_Course
Introduction to RNAseq Analysis Course Material
Abul-Master-Thesis
Co-expression and Co-evolution profiles of heat responsive genes in Tomato
CHESSproject
This is a public repository of CHESS project
fastqc
csf fork of fastqc for usage on selected reads of unaligned bam file
HETCROP
Prediction-based normalization for developmental heterochrony in parallel molecular-level and phenomic studies in plants
IPK_R_courses
IPK R courses, tutorials etc.
OMA-plant-genomes-proj
For updated plant genome data, and code for quality assesment of protein sequences and gene co-evolution analysis.
PlantEd-AI
Reinforcement learning based bots playing the PlantEd game
WheatSouSi
WheatSouSi: Wheat source-sink relationships and limitations