Pinned Loading

1. fisherTestForGenomicOverlapsMilosPjanicMod fisherTestForGenomicOverlapsMilosPjanicMod Public

   Combined bash/R script performs specialized Fisher's exact test and generates p-value that shows significance for the overlap of two sets of genomic regions. Statistical test includes genomic backg…

   Shell 3 1

2. gwasanalytics gwasanalytics Public

   Gwasanalytics consists of a series of scripts that will analyze Gwas Catalog phenotypes and the input bed file from e.g. ChIP-Seq/ATAC-Seq experiment. Gwasanalytics scripts will calculate standard …

   Shell 7 2

3. rnaSeqFPro rnaSeqFPro Public

   rnaSeqFPro (beta) is a script for full processing of RNASeq data starting from fastq files. It performs fastqc quality control, mapping to the human genome hg19 using STAR second pass, counting wit…

   Shell 7 5

4. ChIPSeqFPro ChIPSeqFPro Public

   ChIPSeqFPro (beta) is a script for full processing of ChIPSeq data starting from fastq files. It performs fastqc quality control, mapping to the human genome hg19 or mouse mm10 using bwa, sam to ba…

   Shell 5 3

5. IntegrativeFunctionalGenomics IntegrativeFunctionalGenomics Public

   Collection of scripts used in Miller and Pjanic et al, 2016, Nature Communications and Kim and Pjanic et al, 2017, Plos Genetics.

   Shell 7 3

6. matrixeQTL2LocusZoom matrixeQTL2LocusZoom Public

   Script will use three parameters as inputs, 1) Gene ID from ENSEMBL annotation, 2) chromosome number where the gene is located 3) eQTL file from matrixeQTL and generate output for visualization wit…

   Shell 4 1