When I scan a photo album, I scan the entire album page first to show how the photos were originally situated. Then I scan the individual photos or, depending on the quality, simply make multiple copies of the page and then crop each copy to each photo. By scanning or digitally photographing the entire page first, I maintain the overall relationship of the items in the physical album. In addition, I name the photos with a name that I use to represent the album. This keeps the photos together in one set.
Additionally, any number of image management programs maintain “albums” or collections of images in whatever order they are designated. There are several free programs, the most useful one being Google's Picasa. Picasa will search your hard drives for any images and then put them in order by date or file name. If I scan documents into a folder with a date, all of those images will appear in the same folder in Picasa. I can then view the images in the same order and with the same relationships as scanned or downloaded.
Depending on the scanning software you are using, you can scan the images directly into Picasa.
Apple's iPhoto has features similar to Picasa but is not quite as useful. The iPhoto program is available as a free download for both Macintosh and PC computers. A more expensive, but more full featured solution is Adobe's Bridge program. Bridge also shows all of the images on your hard drives, but in conjunction with Camera Raw and Photoshop, it contains an almost bewildering number of features and options. I use Bridge to add metadata to my photos. Metadata is a way of adding names and text to a document that will be permanently attached to the individual document. The metadata is not usually visible, but can be searched and viewed in a program like Adobe Bridge. One advantage of metadata is that when an image is uploaded to the Internet, the metadata goes with the image and may include copyright notifications.
Many digital cameras come with photo management software. I am most familiar with the software that comes with Canon cameras. However, I have never found the software to be particularly useful and have mostly ignored it. HP and Nikon also have programs. Adobe also has a less expensive program called Photoshop Elements. The newest version comes with a photo management program.
None of these programs presuppose that you would have to organize your photos on your computer in any particular fashion. If you date and name the download folder at the time the images are scanned or downloaded from a camera, they will already be available for further organization by means of the computer software.