I have a raw image that was taken with v4l2-ctl after the camera had been setup like:
# media-ctl -d /dev/media0 -l "'rzg2l_csi2 10830400.csi2':1 -> 'CRU output':0 [1]"
# media-ctl -d /dev/media0 -V "'rzg2l_csi2 10830400.csi2':1 [fmt:UYVY8_2X8/1280x960 field:none]"
# media-ctl -d /dev/media0 -V "'ov5645 0-003c':0 [fmt:UYVY8_2X8/1280x960 field:none]"
and then the picture got snapped with:
# v4l2-ctl --device /dev/video0 --stream-mmap --stream-to=frame.raw --stream-count=1
now I've tried multiple methods to convert this into a jpeg but nothing seems to yield the expected output
the raw file can be downloaded here: 
If you wanted to do that with ImageMagick, you could do something like this:
#!/bin/bash
python3 <<EOF
import numpy as np
h, w = 960, 1280
# Load raw file into Numpy array
raw = np.fromfile('frame.raw', np.uint8)
raw[0::2].tofile('Y') # Starting at the 1st byte, write every 2nd byte to file "Y"
raw[1::4].tofile('U') # Starting at the 2nd byte, write every 4th byte to file "U"
raw[3::4].tofile('V') # Starting at the 3rd byte, write every 4th byte to file "V"
EOF
# Load the Y channel, then the U and V channels forcibly resizing them, then combine and go to sRGB
magick -depth 8 -size 1280x960 gray:Y \
\( -size 640x960 gray:U gray:V -resize 1280x960\! \) \
-set colorspace YUV -combine -colorspace sRGB result.jpg
If yo don't like/have Python, that part can be replaced with some basic C as follows:
#include <stdint.h>
#include <stdio.h>
// Split YUYV file called "frame.raw" into separate channels with filenames "Y", "U" and "V"
// Compile with: clang -O3 splitter.c -o splitter
int main(){
FILE *in, *Y, *U, *V;
uint8_t buffer[4];
size_t bytesRead;
// Open input file and 1 output file per channel
in = fopen("frame.raw", "rb");
Y = fopen("Y", "wb");
U = fopen("U", "wb");
V = fopen("V", "wb");
// read up to sizeof(buffer) bytes
while ((bytesRead = fread(buffer, 1, sizeof(buffer), in)) > 0)
{
fputc(buffer[0], Y);
fputc(buffer[1], U);
fputc(buffer[2], Y);
fputc(buffer[3], V);
}
}
