https://github.com/mikelove/ase-sim

https://github.com/mikelove/ase-sim

Last synced: 3 months ago
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• Host: GitHub
• URL: https://github.com/mikelove/ase-sim
• Owner: mikelove
• Created: 2020-11-30T18:36:10.000Z (over 4 years ago)
• Default Branch: main
• Last Pushed: 2023-06-16T07:37:05.000Z (almost 2 years ago)
• Last Synced: 2025-01-22T07:51:16.468Z (5 months ago)
• Language: Python
• Size: 722 KB
• Stars: 2
• Watchers: 2
• Forks: 1
• Open Issues: 0
• Metadata Files:
  • Readme: README.md

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README

        
# ase-sim

## Simulation for creating allelic expression from fly genome

Author: Michael Love and Euphy Wu

Last modified: Feb 26 2022

Version: 0.0.6

## Software versions used:

* `r/4.1.0`

* `hisat2/2.2.1`

* `samtools/1.13`

* `wasp/2019-12`

* `bowtie/1.3.1`

* `mmseq/1.0.10a`

* `anaconda/2019.10`

## Directories

The following directory structure is needed:

```

anno

data

ht2_align

mmseq

quants

reads

wasp_cht

wasp_mapping

wasp2_counts

wasp2_tests

```

## Provenance of included files

`simpleRepeat_dm6_Aug2014.bed` is from UCSC Genome Browser:

The Drosophila GTF file is downloaded from: