---
title: "data-explore"
format: html
editor: visual
---

I need to get some raw RNA-seq data and run fastqc..

```{bash}
cd ../data

wget -r \
--no-directories --no-parent \
-P . \
-A "*R1.fastq.gz" http://owl.fish.washington.edu/nightingales/P_helianthoides/

```

```{bash}
cd ../data

wget -r \
--no-directories --no-parent \
-P . \
-A "*R2.fastq.gz" http://owl.fish.washington.edu/nightingales/P_helianthoides/

```

```{bash}
pwd
```

```{bash}
/home/shared/FastQC-0.12.1/fastqc -help
```

```{bash}
/home/shared/FastQC-0.12.1/fastqc \
--threads 10 \
--outdir ../output/ \
../data/*gz
```
