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cluster:73 [2020/01/14 14:40] hmeij07 [Paleogenomics Tools] |
cluster:73 [2020/01/14 15:21] hmeij07 |
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Most of the compilations have been performed by Intel' | Most of the compilations have been performed by Intel' | ||
- | The list of software was primarily compiled under RHEL5.1 but more recent compilation | + | Old compilations, |
+ | Newer compilations are done with CentOS 6.10 (since summer 2013) \\ | ||
+ | on either | ||
+ | Some compilations require 7.x and are in / | ||
====== Paleogenomics Tools ====== | ====== Paleogenomics Tools ====== | ||
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Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories: | Samtools is a suite of programs for interacting with high-throughput sequencing data. It consists of three separate repositories: | ||
+ | * http:// | ||
* Samtools: Reading/ | * Samtools: Reading/ | ||
* BCFtools: | * BCFtools: | ||
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</ | </ | ||
+ | |||
+ | * https:// | ||
+ | * Program for analysing NGS data | ||
+ | |||
+ | < | ||
+ | |||
+ | # does not seem to work against htslib version above... | ||
+ | export | ||
+ | export PATH=/ | ||
+ | |||
+ | </ | ||
+ | |||
+ | * https:// | ||
+ | * BEAST 2 is a cross-platform program for Bayesian phylogenetic analysis of molecular sequences. | ||
+ | |||
+ | < | ||
+ | |||
+ | # with local java jre1.8.0_212 | ||
+ | export PATH=/ | ||
+ | |||
+ | </ | ||
+ | |||
====== CD-HIT ====== | ====== CD-HIT ====== |