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Cleanup ONT README

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This commit is contained in:
Thomas A. Christensen II 2021-04-13 13:17:45 -06:00
parent 352604237e
commit 54b8fddca8
Signed by: millironx
GPG key ID: 139C07724802BC5D
2 changed files with 6 additions and 3 deletions
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3
.vscode/settings.json vendored
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@ -1,7 +1,10 @@
{
"cSpell.words": [
"Nanopore",
"chmod",
"cygpath",
"demux",
"mkdir",
"wphl"
]
}

6
ont/README.md
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@ -8,7 +8,7 @@ Note that at the time of writing, the GridION runs Ubuntu 16.04 LTS, and mounts
### `ont-demux`
```bash
$ ont-demux FAP_FOLDER
ont-demux FAP_FOLDER
```
Consolidates all FAST5s into a single gzipped FASTQ using ONT's `guppy_barcoder`. Note that this is for MinKNOW's default settings of 4000 reads/file. It is _highly_ recommended to set the "Number of Reads per File" entry in MinKNOW to 0, and checking "Compress FASTQs" to produce nearly the same results.
@ -16,7 +16,7 @@ Consolidates all FAST5s into a single gzipped FASTQ using ONT's `guppy_barcoder`
### `ont-transfer`
```bash
$ ont-transfer [-s 1|6|12] FAP_FOLDER
ont-transfer [-s 1|6|12] FAP_FOLDER
```
Transfers all of the passing FAST5 and FASTQ files to the first available USB drive, skipping empty barcodes based on the number of the first skip passed through the `-s` parameter, consolidating all files of the same type into one folder for easier sorting and uploading.
@ -32,7 +32,7 @@ Transfers all of the passing FAST5 and FASTQ files to the first available USB dr
See ONT for guppy installation instructions. Others may be installed by opening a terminal and running
```bash
$ sudo apt-get install git parallel -y
sudo apt-get install git parallel -y
```
### Instructions