<commit_before>---
layout: post
title: Linkage Mapping
---

## Concepts

- What are linkage maps?

- Mapping populations.

- Identification of polymorphism.

- Linkage analysis of markers.

- Genetic distance and mapping functions.

### Slides

1. [Linkage mapping introduction](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_1.pdf)

2. [Linkage mapping construction](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_3.pdf)

3. [Chi-squared test and a toy example of Mendelian segregation distortion ](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_1.pdf)

## Onemap

``OneMap`` is a software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses. This [github page](https://github.com/augusto-garcia/onemap) has its version under development. New functions will be added (experimental work) and, once it is done, we will synchronize the repositories and add it to CRAN. The complete tutorial to build a linkage map for inbred-based populations (F2, RIL and BC) and for outcrossing populations can be accessed by these links ([F2 population](http://augustogarcia.me/onemap/vignettes_highres/Inbred_Based_Populations.html#combining-onemap-objects) and [outcrossing](http://augustogarcia.me/onemap/vignettes_highres/Outcrossing_Populations.html)). Please, check these tutorials. They have described the main concepts necessary to build a linkage map. A reduced version based on these tutorials was prepared by <NAME> and can be accessed using this link ([reduced version](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_4.pdf)

## Exercise (by <NAME>)<commit_msg>Update 2017-09-01-GeneticMapping.md<commit_after>---
layout: post
title: Linkage Mapping
---

## Concepts

- What are linkage maps?

- Mapping populations.

- Identification of polymorphism.

- Linkage analysis of markers.

- Genetic distance and mapping functions.

### Slides

1. [Linkage mapping introduction](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_1.pdf)

2. [Linkage mapping construction](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_3.pdf)

3. [Chi-squared test and a toy example of Mendelian segregation distortion ](https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_2.pdf)

## Onemap

``OneMap`` is a software for constructing genetic maps in experimental crosses: full-sib, RILs, F2 and backcrosses. This [github page](https://github.com/augusto-garcia/onemap) has its version under development. New functions will be added (experimental work) and, once it is done, we will synchronize the repositories and add it to CRAN. The complete tutorial to build a linkage map for inbred-based populations (F2, RIL and BC) and for outcrossing populations can be accessed by these links ([F2 population](http://augustogarcia.me/onemap/vignettes_highres/Inbred_Based_Populations.html#combining-onemap-objects) and [outcrossing](http://augustogarcia.me/onemap/vignettes_highres/Outcrossing_Populations.html)). Please, check these tutorials. They have described the main concepts necessary to build a linkage map. A reduced version based on these tutorials was prepared by <NAME> and can be accessed using this link ([reduced version])(https://github.com/lfelipe-ferrao/lfelipe-ferrao.github.io/blob/master/classes/linkage_mapping_4.pdf)

## Project (by <NAME>)
{'fraction_non_alphanumeric': 0.10155815247634947, 'fraction_numerical': 0.0077907623817473565, 'mean_word_length': 5.176975945017182, 'pattern_counts': {'":': 0, '<': 7, '<?xml version=': 0, '>': 7, 'https://': 10, 'lorem ipsum': 0, 'www.': 0, 'xml': 0}, 'pii_count': 0, 'substrings_counts': 0, 'word_list_counts': {'cursed_substrings.json': 0, 'profanity_word_list.json': 0, 'sexual_word_list.json': 0, 'zh_pornsignals.json': 0}}
{'dir': 'git-commits-cleaned', 'id': '2213463', 'n_tokens_mistral': 1156, 'n_tokens_neox': 1080, 'n_words': 322}