When comparing WhatsApp vs Matrix, the Slant community recommends Matrix for most people. In the question“What is the best chat software?” Matrix is ranked 1st while WhatsApp is ranked 17th. The most important reason people chose Matrix is:
Matrix is an open standard, defining simple HTTP APIs so that devs can easily write their own clients, bots, bridges or servers. You're not locked into a specific set of implementations.
Specs
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Pros
Pro Straightforward interface
The interface is very simple, fast and easy to use. You can start using it as soon as the app has been downloaded - it does not require setting anything up or registering. You can communicate with anyone in your contacts list that also uses WhatsApp. Includes useful features like seeing when a contact is currently available or typing.
Pro Widely used
WhatsApp reported 1.5 billion users in 2018. Your friends are most likely already using WhatsApp, so it's easy to get setup.
Pro Effortlessly builds your contacts by using your phone number as identification
WhatsApp will automatically find all of your contacts currently using Whatsapp and add them to your contacts. This makes it really easy to setup and given that it's the most popular messaging app it's likely that a lot of your contacts are already using it.
Pro Message mirroring on web app
WhatsApp can be used from the desktop via Chrome, Firefox and Opera browsers. Accessing it requires using the Android app to scan the QR code that's presented on web.whatsapp.com.
Pro Signal protocol
Whatsapp uses the state-of-the-art Signal protocol that ensure strong end-to-end encryption.
Pro One-on-one texts can be encrypted
WhatsApp has implemented end to end encryption for messages sent on it's service. Even WhatsApp has no way to read a users messages.
Pro Built on an open standard
Matrix is an open standard, defining simple HTTP APIs so that devs can easily write their own clients, bots, bridges or servers. You're not locked into a specific set of implementations.
Pro Bridges other networks into a single decentralised network
Matrix has bridges to IRC (freenode, moznet, oftc, snoonet etc), Slack, Gitter, Rocket.Chat, XMPP, SMS, SIP and others. The point is to 'matrix' all the different networks out there into one single decentralised network.
Pro Has an easy to use client called Riot
Riot.im is the easiest way to use Matrix, with great clients for Web, iOS and Android (and Fdroid).
Pro Does not require a centralized server to establish a connection between two users
Matrix is decentralized, there's no one central point that the information goes through and so no once central point of failure or control.
Pro Matrix prioritizes direct messaging with people the same as Slack-style groups
Matrix aims to "provide an analogous ecosystem to email - one where you can communicate with pretty much anyone, without caring what app or server they are using" using a neutral identity system.
Pro Supports different kinds of communication
Matrix is designed to support Instant Messaging, VoIP/WebRTC signalling (voice and video) and Internet of Things communication.
Pro Has an app store for 3rd party integrations & bots
Riot.im includes an app store with integrations for Github, JIRA, Jenkins, Giphy etc - and anyone can add more via Matrix.
Pro Offers choice of clients
Which can be found here.
Pro Maintains full conversation history
Pro Has an active community behind it
Pro Can be integrated with existing communication services
Matrix is designed to support Instant Messaging, VoIP/WebRTC signalling and Internet of Things communication and allows cross-communication between those services. Meaning one person could be using IRC and another Slack for IMs, or one person could be using Skype and another Google Hangouts for videoconferencing.
Pro End-to-end encryption
Matrix features end-to-end encrypted chats which are syncronized accross all your devices.
E2E is implemented in the matrix-js-sdk library and Riot.im client.
Cons
Con Shares meta data with Facebook
WhatsApp shares your messaging meta data with Facebook if you do not opt-out in the settings. If you use the same phone number for WhatsApp and Facebook, the profiles can easily be linked.
See https://www.whatsapp.com/faq/en/general/26000016
Con Tied to carrier phone number
WhatsApp cannot be used by people without a smart phone with an active cell plan. If your phone is lost or damaged, or if your phone number changes, you cannot get messages sent by friends without them updating your phone number. You cannot send message to them until you are able to get SMS messages at your phone number.
Con Proprietary
Not open source.
Con Hard to migrate history cross platform
Migrating your chat history from Android to iOS or the other way around is not so simple. In some cases it requires a 3rd party app and in some the only way is to migrate specific chats one by one.
Con Web interface uses message mirroring
To use your computer to send messages your phone must be on with a consistent data connection.
Con Single device
You cannot use the same WhatsApp account on multiple devices (e.g. a tablet, a PC and a cellphone). The account is tied to the device with the specific cellphone number. Chat history is deleted when you sign in to a new account, unless you have created a backup.
Con No cloud sync
Messages are not stored on WhatsApp server for privacy and security reasons.
Con Limitation on shareable file sizes
WhatsApp now allows users to share files of any type, but there is still a 16 MB size limit.
Con Keys cannot be checked automatically
You cannot automatically check keys of your recipients. Only manually.