vpbrendel Goto Github PK

aegean

Integrated toolkit for analysis and evaluation of annotated genomes

allrice

Code for rice genome analyses (but not necessarily only rice)

bghandbook

Handbook for Brendel Group students, postdocs, and staff

bgsingularityhub

A portal to our collection of Singularity/Apptainer definition and image files

bioinformatics-lab-github-demo

bismark

A tool to map bisulfite converted sequence reads and determine cytosine methylation states

bsmap

bwasp

Bisulfite-seq data Workflow Automation Software and Protocols

bwaspr

R functions and scripts to process output from the BWASP workflow

cagefightr

Analysis of Cap Analysis of Gene Expression (CAGE) data using Bioconductor

code4rice3k

code developed for the analysis of the Rice 3000 Genomes project data

codefmab

code and supplementary documents supporting the FMAB book project

ctbpprj

Fork of BrendelGroup/CTBPprj

dsbs

fmab

Fundamental Models and Algorithms in Bioinformatics

gainsaw

Workflows for genome alignment chain file selection and annotation tasks

geneseqer

Sensitive spliced-alignment of cDNAs or proteins

genhub

Explore eukaryotic genome composition and organization with iLoci

gorampage

GoRAMPAGE - a workflow for promoter detection by 5'-read mapping

gostripes

Computational workflows for STRIPE-seq data analyses

iloci_lai2020

Procedures and data for the iLoci study described in Lai et al. (2020)

iloci_slb22nargb

Procedures and data for the iLoci study described in Standage, Lai and Brendel (2022)

insectchapter

mmb_appendix

movrs

Motif set Reduction and Validation (MoVRs) - a workflow for the derivation of genome-wide DNA motif detection and vetting

mrbo-tn

This is an implementation of modified RBO in the case of ranking gene lists.

mrnamarkup

Evaluation and annotation of assembled transcripts

srassembler

Selective and Recursive local Assembler

tmpbgsingularityhub

A portal to our collection of singularity definition and image files

tregga

Targeted reference-guided genome assembly for comparative rice genomics