Tweet
Can someone define the significance of "width" in the context of metagenomics sequence alignment.
Also I fount on this link http://www.hmpdacc.org/HMSCP/ an "abundandace table" for a particular environmental sample. First few entries in this table is as follows. Is there a way to get relative abundance using these information?
Also I fount on this link http://www.hmpdacc.org/HMSCP/ an "abundandace table" for a particular environmental sample. First few entries in this table is as follows. Is there a way to get relative abundance using these information?
Code:
Reference Name Group Depth Breadth Total reference bases Streptococcus parasanguinis ATCC 15912 Bacteria 546.925954703539 95.4601684855376 2159948 Streptococcus salivarius SK126 Bacteria 520.58396101736 96.269332040302 2128332 Veillonella dispar ATCC 17748 Bacteria 196.692650948446 94.3962085773803 2116567 Rothia mucilaginosa ATCC 25296 Bacteria 155.224897164633 90.6639357419746 2255158 Rothia mucilaginosa DY-18 Bacteria 132.65 90.1404352109398 2264603 Streptococcus thermophilus LMD-9 Bacteria 61.3305084707576 82.3263121869264 1864178 Prevotella melaninogenica ATCC 25845 Bacteria 58.6451860472016 86.5324172532622 3168282 Granulicatella adiacens ATCC 49175 Bacteria 55.7879021396837 75.2977502849584 1923088 Prevotella melaninogenica D18 Bacteria 31.5585166299603 69.1128895822152 3292341 Actinomyces odontolyticus ATCC 17982 Bacteria 30.0428265346789 80.4829895085468 2393758 Actinomyces odontolyticus F0309 Bacteria 28.9803390960919 80.5965061605801 2431995