MEME motif discovery

My input file is RNA, however MEME display it as DNA automatically. How do we choose our option.

fasta

• 480 views • link

updated 3.5 years ago by Ram 4.5K • | written 4.4 years ago by kaisakaiho73847 0

0 answers

No answers yet.

More posts like this

Fragment size of published single end RNAseq data
written 2.2 years ago by kojima.1aki 0

Hello. I'd like to use RSEM after STAR. Public RNAseq data was single ended, so we thought we should map our data to single ended. …
obtaining circular RNAs' sequences from circBase
written 3.0 years ago by aminijavad4 1

we can search circBase ID on the circBase website and get information about the circular RNA including DNA position and length of splice. However, it …
conversion of fasta file format to tabular format
written 4.4 years ago by kaisakaiho73847 0

Hi, I have my fasta file of RNA sequence which I wanted to identify motif via MEME web-based tool, however I had some issue with …
Centrimo from the MEME-suit --neg option
written 6.3 years ago by blur 30

Hi, I have peaks and negative peaks (i.e. I switched the IP and input files). I ran centrimo individually on each file and got a …
Unusual results from meme-chip
written 7.8 years ago by kdc15 4

Hi, I have just run meme-chip with the following script: meme-chip -oc outputfile -dna -meme-minw 8 -meme-maxw 20 -meme-mod anr -meme-nmotifs 100 -db motif_databases/CIS-BP/Homo_sapiens.meme -db …
Normalisation using Input DNA & calling peaks [Chip-seq]
written 9.0 years ago by anu014 19

Hello Biostars, We all know that macs2 uses 'global background' for normalisation in 'mascs2 callpeaks' command. But is it possible that we can use our …
Co-expression network integration
written 9.2 years ago by pranav 0

Hi ,I am new to R as well as computational biology. I am having expression profiles for lncRNA and mRNA of capsicum species . All …
ChIP seq- input DNA control for normalization
written 10.6 years ago by Z-F 2

Hi everyone. I am a new one in ChIP-seq and planning to do it for a poorly characterized TF. We are going to do ChIP …
Making FASTA files
written 11.5 years ago by kevluv93 17

Hey gang, I downloaded a series of DNA sequences that I was going to use as a scaffold for throwing RNA data at. However, I'm …
Split Fastq Files Into Chunks Of 1M Reads
written 15.1 years ago by Bioscientist 174

Each of my fastq files is about 20M reads, while I need to split the big fastq files into chunks of 1M reads. Is there …