Counting Features metaRNA-seq
Hi All,
I am attempting to perform RNA-seq analysis on microbiome transcripts. I have managed to align my transcripts to my reference genomes, but have no idea how to simply count the number of reads per feature. I could write a script, but don't want to reinvent the wheel if it has already been done. At the moment I have a whole bunch of sorted bam files from each of my individual communities. Let me know if any one has any suggestions.
1 answer
Log in to answer this question.
More posts like this
-
Transforming diploid GT on male X and Y chromosome to haploid
written by Michaela •
-
comparing the intron/ intron location with the reference transcript in the orthologous transcripts
written by praasu •
-
Splitting predicted transcripts according to ORF coordinates
written by Buffo
-
Tools for recovering ribosomal RNA sequences from whole genome assemblies
written by ddh8602 •
-
Calculate individual missingness in vcf NOT using VCFtools
written by evan.hersh •
-
Tool: Download all refseq/genbank bacterial genomes from NCBI
written by johnsrc06 •
-
Analyzing metaRNA-seq Data- Assembly of reference sequences
written by jbran •
-
Plant Annotation Workflow
written by User000
-
Help With Multiple Whole Genome Alignment. Aligning Over 400 Whole Genomes
written by agatorano •
-
Trying To Get Around Memoryerror: Out Of Memory Exception In Biopython Program
written by hpodschwit •
