New shy guinea pigs and eating

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Aga

New Born Pup
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I have two young (2 and 3 months old) guinea pigs from breeder. They are used to human touch as the breeder frequently cuddled them etc. They came to my house yesterday and stand still in the one corner of their cage. I am a bit worried what about eating and drinking - they almost do not move and some of food disappered but I cannot tell which one ate... The breeder told me to take their hideouts away because they must get used to me instead of constant hiding. How long they will be so scarried and what about water and food?
 
You have to allow your new piggies to settle in. They've been taken from an environment they're used to and put in a new home with nowhere to hide. The standing frozen is a prey instinct to 'pretend' they're not there and so the predator would leave them alone.

Please put in two hides for them and also cover their cage if you can. New piggies need at least 48 hours to settle in before you start handling etc. You can put the food there and they (will) likely eat when they know you're not around. When approaching where they are, talk to them. A predator doesn't make its' presence known. Also talk to them when you're nearby, when you're cleaning them out or putting food in. You can choose some words to signify things that you're doing.

Have a read of these threads, they'll help you start on your journey of getting them to trust you. You need to let them get used to you on their own terms, not your own. Otherwise enjoy and we love PIGTURES :D

How Do I Settle Shy New Guinea Pigs?
Understanding Prey Animal Instincts, Guinea Pig Whispering And Cuddling Tips
 
I covered the cage at night and once they thought noone is watching, they started to chat with each other and run all over the cage. So is it better to give them their houses or not? and how long to keep the cage covered? These are my girls :)
 

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Lovely fuzzy girls! I would definitely give them their houses back - they need a safe place. They will gradually gain confidence and get used to you, but it is something that takes time.
 
Definitely give them their houses back, and don't pick them up too much, rather, try feeding them through the bars and then through an open door. Just let them feel in control and they'll warm up to you a lot quicker and trust you more! It might take a few weeks, or even months before they're running up to you during floor time, but be patient and they'll come around!
 
I agree with everyone else. Your babies are overwhelmed and scared, and need to be able to do things on their own terms until they settle.
Everything is new to them, and forcing them to be in the open must be terrifying.
Please read the links that @Siikibam attached on how to settle shy new piggies.

Trust me when I say that 99% of guinea pigs will eventually become friendly, bold and demanding when they work out that you are the one who brings the food.
Your girls are beautiful and are very lucky to have found a home where they will be so well cared for.
 
One more question. Younger girl (white one - Nelly) now allows for touching and taking out of cage. She is very calm, sleeps on knees, closes her eyes etc. The other one (tricolor Lilly) is really crazy, runs and jumps all over the cage, "speaks" all the time to Nelly (Nelly rumbles at her) but does not allow for touching and when I had to inspect her skin she almost screamed. Will Lilly always be like that or she will learn from Nelly that humans are not so terrible? Can I take only Nelly for cuddling?
 
One more question. Younger girl (white one - Nelly) now allows for touching and taking out of cage. She is very calm, sleeps on knees, closes her eyes etc. The other one (tricolor Lilly) is really crazy, runs and jumps all over the cage, "speaks" all the time to Nelly (Nelly rumbles at her) but does not allow for touching and when I had to inspect her skin she almost screamed. Will Lilly always be like that or she will learn from Nelly that humans are not so terrible? Can I take only Nelly for cuddling?
 
Some take time to get used to being cuddled and picked up while others take to human contact like a duck to water. On the whole you have to assume it will take time.

You’ve only had them a short time so give it more. Pick her up every day and hold for a few minutes. Then gradually extend the time you hold her for. But be aware not all piggies like lap time or being cuddled.

Maybe try using a cuddle sack or something to pick her up in. If you can herd her in then pick her up.
 
The piggies are gorgeous.
I can't add to what has been said but my Phoebe took about 6 months before she was happy to be stroked and petted.
All 4 hate to be picked up - a tunnel or cuddle pouch does help
 
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