bpucker/yam bpucker/yam

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  • Rank 2,294,772 (Top 46 %)
  • Language
    Python
  • Created about 5 years ago
  • Updated over 2 years ago
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Repository Details

scripts associated with yam genome assembly

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1

MGSE

Mapping-based Genome Size Estimation (MGSE) performs an estimation of a genome size based on a read mapping to an existing genome sequence assembly.
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2

AppliedGenomeResearch

course about NGS data processing: genomics and transcriptomics
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23
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3

teaching

This repository gives an overview of my teaching activities. Links to slides and data sets are included. Feel free to re-use my content.
19
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4

APPLS

Applied Python Programming for Life Scientists
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18
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5

RNA-Seq_analysis

scripts for RNA-Seq analysis
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16
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6

MolecularMethodsInGenomeResearch

practical course about lab methods in genome research
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15
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7

MYB_annotator

This tool performs an automatic identification, annotation, and analysis of the MYB gene family in plants. It can be applied to new transcriptome of genome assemblies.
Python
13
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8

FlavonoidFriday

Flavonoids are specialized metabolites in plants that have numerous functions including protection against abiotic stresses, pigmentation, and repelling herbivores.This repository provides additional background to the #FlavonoidFriday tweets
11
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9

MybMonday

MYB transcription factors are one of the largest gene family in plants and control many processes. This repository provides additional background to the #MYB_Monday tweets
Python
10
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10

KIPEs

Knowledge-based Identification of Pathway Enzymes (KIPEs) performs an automatic annotation of the flavonoid biosynthesis steps in a new transcriptome of genome sequence assembly.
Python
8
star
11

script_collection

Collection of scripts to solve small bioinformatic challenges.
Python
7
star
12

LongReadWalker

closing gaps in long read assemblies by long read walking
Python
5
star
13

ncss2018

Genome-wide investigation of non-canonical splice sites
Python
5
star
14

Boas_Pucker

Homepage of Boas Pucker listing publications and professional activities
3
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15

NAVIP

Neighborhood-Aware Variant Impact Predictor
Python
3
star
16

bananaMYB

scripts associated with the genome-wide analysis of MYBs in the banana genome
Python
3
star
17

teaching_concepts

Teaching concept collection
3
star
18

bHLH_annotator

automatic annotation of bHLH gene family in plants
Python
3
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19

yam_scripts

all my yam scripts
Python
2
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20

Nd1_PacBio

scripts associated with the Nd-1 genome assembly based on PacBio data
Python
2
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21

vivi-bud-dev

collection of scripts related to the bud development study in Vitis vinifera
Python
2
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22

MtMYBs

scripts associated with the genome-wide investigation of MYBs in Medicago
Python
2
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23

AppliedPlantGenomics

materials and scripts used for Applied Plant Genomics
Python
2
star
24

PythonTUBS

Python introduction for life scientists
2
star
25

variant_calling

variant calling and processing
Python
2
star
26

GKseq

scripts for Arabidopsis thaliana resequencing analyses
Python
2
star
27

PBBtools

collection of mini tools for the BioinfToolServer
Python
1
star
28

banana

Python
1
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29

BnaGeneticMarkers

analysis and mapping of genetic markers in Brassica napus
Python
1
star
30

banana_transcriptomics

scripts associated with banana transcriptomics
Python
1
star
31

AppliedPlantTranscriptomics

Collection of materials belonging to the Applied Plant Transcriptomics course
1
star
32

VitisGenomics

Python
1
star
33

CaryoAnthoBlock

investigation of expression levels of anthocyanin biosynthesis genes in the Caryophyllales
Python
1
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34

PEPD

Python
1
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35

DataLiteracyInPlantSciences

scripts and data sets associated with Data Literacy in Plant Sciences course
Python
1
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36

NFkB

NFkB investigation
Python
1
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37

At7

Python scripts related to the At7 sequencing project
Python
1
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38

codon_usage

script associated with codon usage
Python
1
star
39

CHS

CHS gene structure prediction analysis
Python
1
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40

digi_fellowship

materials in relation to my digital teaching fellowship
Python
1
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41

pitaya

script associated with pitaya re-analysis
Python
1
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42

CoExp

Co-Expression analysis tool
Python
1
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43

orthogroups

script related to the filtering and analysis of orthogroups in the Caryophyllales
Python
1
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44

AhaGenome

script associated with A. halleri genome assembly
Python
1
star
45

selfie

all script associated with gf-selfie
Python
1
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46

GenomeAssemblies2018

all scripts involved in the genome assembly and investigation process
Python
1
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47

CaMYBs

investigation of the R2R3 MYBs in Cicer arietinum
Python
1
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48

spark

Python
1
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49

lycocyc

collection of scripts for lycopene cyclase analysis
Python
1
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50

Overview

Overview of repositories associated with @bpucker & @PuckerLab. This covers science communication projects, the developed bioinformatics tools, teaching activities, and project specific repositories.
1
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