Luis_V

I didn't expect to be schooled but I agree with both of you. It took me two years to get this scholarship while I was living with $800 dollars a month to pay the rent and everything else. I don't want this happening to others, so if I can restrain from using more than I need I could indirectly be helping other people.
 
For now, my work relies mostly on CPU and RAM. What would be the minimum GPU I can get to just display the image? Should I finish the build with a GT 710 ($60 CAD)? Or should I go for a 5600G instead?

If you really want the X570, go for it. At the end, you are building a high end system with almost zero compromises. But regardless of that, we like to find improvements in the build you just posted.
 
If money is not that important and you want the top of the top for future profing and you like Gen4 a lot, go for the X570 and a 5900X/5950X. But, as I said before, you may no notice any difference between a X570 and a B550 (and Gen4 vs Gen3) in your everyday usage.
 
Have a nice day!

$6000 for 16 cores and a $300 quadro gpu doesn't add up for me.
Yes ecc will have performance toll a bit.
Below is a much better config for the same price with 8gb quadro card and 32 cores, aside from the ECC memory.
 
PCPartPicker Part List
CPU: AMD Threadripper 3970X 3.7 GHz 32-Core Processor  ($2699.00 @ Canada Computers) 
Motherboard: Gigabyte TRX40 AORUS PRO WIFI ATX sTRX4 Motherboard  ($635.80 @ Vuugo) 
Memory: G.Skill Trident Z Royal 128 GB (8 x 16 GB) DDR4-3200 CL16 Memory  ($1109.98 @ Newegg Canada) 
Storage: Samsung 980 500 GB M.2-2280 NVME Solid State Drive  ($95.99 @ PC-Canada) 
Storage: Seagate BarraCuda 4 TB 3.5" 5400RPM Internal Hard Drive  ($94.99 @ Memory Express) 
Video Card: PNY Quadro RTX 4000 8 GB Video Card  ($1399.00 @ Canada Computers) 
Case: Lian Li PC-O11 Dynamic ATX Full Tower Case  ($184.99 @ Memory Express) 
Power Supply: Corsair RMx (2021) 1000 W 80+ Gold Certified Fully Modular ATX Power Supply  ($259.99 @ Best Buy Canada) 
Total: $6479.74
Prices include shipping, taxes, and discounts when available
Generated by PCPartPicker 2021-05-22 23:23 EDT-0400

The machine looks quite capable. My only thought is that the NVMe (m.2) drive seems a bit small. The PCIe 4.0 interface is the fastest generally available for this class of machine.
 
ECC (error correction code) memory does run slower than non ecc. However it is able to correct single bit errors without halting the system and detect multi-bit errors, preventing data corruption. For the work described ecc memory is a good idea. The slightly lower raw memory performance is generally worth the added data integrity.
 
The very limited requirements documentation suggests that the program can make use of most if not all the  threads available. Without knowing more about the software there is no way of knowing how efficiently the application scales. Presuming a high degree of parallellism and data sets that can use that parallelism, I think it is safe to assume that a fourfold increase in processing threads should offer a significant performance improvement. 

I have the TP-Link and it works great. 

I would recommend not mixing and matching RAM modules for this application.

It theoretically can be done, and is done often enough without major problem. However, it can cause certain problems that might be detectable, or might not be, and if you're working with important data, you want to minimize the opportunity for data corruption.

I would stick to like sticks, so to speak.

That's a whole conversation in and of itself, and at the end of the conversation you find out that while theoretically it can make a huge difference, in reality it often makes little to no difference, especially without considering lots of specifications and adjusting many settings. Don't just go by speed, latency also makes a big difference.
 
According to the hardware requirements:
You likely won't saturate your NVME drive with a single i5, so I wouldn't worry about that.

8 threads x 2GB/thread minimum = 16GB minimum.

I can't seem to find any information about whether or not memory usage will increase with the amount of memory available: or in other words, if you have 4GB RAM per thread, will the application use it?

I would suspect that it would as MaxQuant seems like quite a resource greedy application.

Given this, my recommendation would be:
 
Go for the largest amount of not budget RAM that you can afford, with a minimum of 16GB. Prefer quantity over speed for your application, but do get the fastest RAM in your budget and on your motherboards QVC list without sacrificing the amount of RAM you are getting.

If ram is maxed, upgrade thata first. Running out of ram means its probbly hitting swap and that will kill performance.
 
Wht does task manager look like? Screenshot?

If ram usage is at 99% i would upgrade that first

From the MaxQuant website:
Datasets = RAM
Large = Lots of
 
With only 8GB of RAM, I'm willing to bet dollars to donuts that your performance slowdown is due to memory paging.

Shooting from the hip I'd say that your biggest performance improvement, atleast without building a whole new machine with a better processor, is going to come from adding more RAM.

How big are your datasets? What is the maximum amount of memory supported by your machines motherboard? Those two numbers will help you figure out how much RAM to add to your machine.

make sure you quote us so we can see your responses.