hjruscheweyh
commented
4 months ago Dear @lrt666
the mOTUs profiles report by default relative abundances for all existing mOTUs (Just as if you would work with an OTU table). This means that most mOTUs will have a relative abundance of 0.0 and only a few (depending on the environment) mOTUs will have a relative abundance > 0.0.
Best, Hans
Hi, I am processing my whole genomic sequencing files with motus, but my output seems very strange, the following are part of my output:
git tag version 3.1.0 | motus version 3.1.0 | map_tax 3.1.0 | gene database: nr3.1.0 | calc_mgc 3.1.0 -y insert.scaled_counts -l 75 | calc_motu 3.1.0 -k mOTU -C no_CAMI -g 3 | taxonomy: ref_mOTU_3.1.0 meta_mOTU_3.1.0
call: python /mnt/vstor/CSE_CSDS_VXC204/rxl761/anaconda3/envs/motus/bin/motus profile -f 11808.3069.SALB.W2V1.R1.fastq -r 11808.3069.SALB.W2V1.R2.fastq
consensus_taxonomy unnamed sample
Leptospira alexanderi [ref_mOTU_v31_00001] 0.0000000000 Leptospira weilii [ref_mOTU_v31_00002] 0.0000000000 Chryseobacterium sp. [ref_mOTU_v31_00004] 0.0000000000 Chryseobacterium gallinarum [ref_mOTU_v31_00005] 0.0000000000 Chryseobacterium indologenes [ref_mOTU_v31_00006] 0.0000000000 Chryseobacterium artocarpi/ureilyticum [ref_mOTU_v31_00007] 0.0000000000 Chryseobacterium jejuense [ref_mOTU_v31_00008] 0.0000000000 Chryseobacterium sp. G972 [ref_mOTU_v31_00009] 0.0000000000 Chryseobacterium contaminans [ref_mOTU_v31_00010] 0.0000000000 Chryseobacterium indologenes [ref_mOTU_v31_00011] 0.0000000000 Chryseobacterium arthrosphaerae [ref_mOTU_v31_00012] 0.0000000000 Chryseobacterium sp. [ref_mOTU_v31_00013] 0.0000000000 Chryseobacterium sp. YR459 [ref_mOTU_v31_00014] 0.0000000000 Chryseobacterium cucumeris/indologenes [ref_mOTU_v31_00015] 0.0000000000 Chryseobacterium sp. YR477 [ref_mOTU_v31_00016] 0.0000000000 Chryseobacterium sp. RU33C [ref_mOTU_v31_00017] 0.0000000000 Chryseobacterium gleum [ref_mOTU_v31_00018] 0.0000000000 Chryseobacterium culicis [ref_mOTU_v31_00019] 0.0000000000 Chryseobacterium joostei [ref_mOTU_v31_00020] 0.0000000000 Komagataeibacter xylinus/hansenii [ref_mOTU_v31_00021] 0.0000000000 Proteobacteria sp. [ref_mOTU_v31_00022] 0.0000000000 Sphingomonas sanguinis [ref_mOTU_v31_00023] 0.0000000000 Sphingomonas parapaucimobilis [ref_mOTU_v31_00024] 0.0000000000 Sphingomonas yabuuchiae [ref_mOTU_v31_00025] 0.0000000000 Vibrio natriegens [ref_mOTU_v31_00026] 0.0000000000 Vibrio sp. [ref_mOTU_v31_00027] 0.0000000000 Vibrio parahaemolyticus [ref_mOTU_v31_00028] 0.0000000000 Vibrio alginolyticus [ref_mOTU_v31_00029] 0.0000000000 Do you know what's going on here?