Hi all, I'm running EggNOG-mapper on a metagenomics dataset for functional annotation using the DIAMOND mapping mode on a high-performance virtual machine in Google Cloud …

I want to run trimmomatic with Trinity, but there's some error that I can't solve. “ILLUMINACLIP:/tempwork173/r09b45015/anaconda3/envs/rnaseq/share/trimmomatic/adapters/TruSeq3-PE.fa:2:30:10 SLIDINGWINDOW:4:5 LEADING:20 TRAILING:3 MINLEN:25” **Error, do not understand options: …

I'm trying to get taxonomy identifiers when using diamond but it's not working. I made the database so I can pull taxonomy info in addition …

Hi guys, I'm trying to run eggnog to annotate some proteins. I followed the exact instructions found on [their wiki page for downloading and basic …

I used the SortSam option with GATK4 picard tools but it gives an error saying: htsjdk.samtools.util.RuntimeIOException: Problem writing temporary file file:///tmp/xxxxxx//sortingcollection.1885090825398510531.tmp. Try setting TMP_DIR to …

Hi, why the error is given though the file is here -bash-4.2$ ls fna_PA.ls resfinder.pl tmp -bash-4.2$ perl resfinder.pl Error: No such file or directory …

I am trying to perform Megan (http://ab.inf.uni-tuebingen.de/software/megan/) analysis. I have a paired-end sequenced sample. I have extracted all the reads in fastq from both R1 …

I tried to run the KMC3 in Linux. After make, I tried to run the kmc by the command line: /home/niu/KMC-3.0.1/bin/kmc -k20 reads.fq kmers1 tmp. …

how to solve this ? the code: bamf <- system.file("file.bam",package="rbamtools",idx=FALSE,verbose=0) r1 <- bamReader(bamf) error: Error in .local(.Object, ...) : [bam_reader_open] Opening bam_file "" failed!

I am trying to align tRNAseq data to the tRNA transcriptom. I made the index files using bowtie and trying to align using tophat. when …