In my honest opinion and personal experience, you will do fine with the following:
classic.jisho.org -> japanese/english and kanji dictionary
国語・英和・和英・類語・中国語辞書検索 - goo辞書 -> japanese / japanese dictionary, offers a more in depth explanation with use cases
株式会社アルク (thank you Nekojita-san) is a collection of phrases, expressions translated from japanese to english, and vice versa. Contains a lot of expressions for many different situations, including specific words if you're in college for example. Will do a lot for your spoken and written japanese as well
Nihongo Sou Matome and or Kanzen Master will be responsible for introducing you to japanese grammar and idiomatic expressions , these are grouped by JLPT levels.
Your reading studies are supposed to improve your vocabulary, anything goes, from Sankei Shinbun to NHK, raw manga, blogs and whatever; It might become rather boring for a while, but thats it, Its a barrier you gotta deal with.
What I did was,I would write down every new word I found and an example phrase (extracted from alc.co.jp) that (repeated a thousand times)helped me memorize new kanji as well. You will probably miss a lot of information, struggle to comprehend the syntax and /or grammar and sometimes you will even be able to translate every single word out of a sentence while completely not comprehending what it means at all.
One thing to keep in mind is, its supposed to be like that, I'm stressing it because some people will think to themselves "Its not working" and try to search for more and more resources and keep asking more seasoned forum members for more "tips and hints", when in reality things are working fine and you're just oblivious to your own progress in the language.