Assemblies of NTM seq data*
/projects/rwarren_prj2/ntm/MinION/SJ_16

n	n:500	n:N50	min	N80	N50	N20	E-size	max	sum	name
4755	1318	215	500	2671	6305	12254	7794	31812	4499895	./LINKS/myco-8.fa (original MiSeq assembly)
4616	1179	163	500	3099	7703	16649	10131	40138	4501379	ntm-miseq_MINION-LINKS.scaffolds.fa (LINKS with SJ_15 ONT - FILTER PASS 2D)
4178	741	63	500	7593	21452	42688	26498	92731	4553101	./LINKS/ntm-miseq_MINIONsj15-LINKS.scaffolds.fa (LINKS with SJ_15 ONT - all 2D)
4663	1226	199	501	3015	6772	13493	8464	38015	4529212	./LINKS/ntm-miseq_MINIONsj16-LINKS.scaffolds.fa (LINKS with SJ_16 ONT - all 2D)
4125	688	62	501	7791	22378	42352	27242	108081	4569010	./LINKS/ntm-miseq_MINIONall-LINKS.scaffolds.fa (LINKS with SJ_15 + SJ_16 ONT - all 2D)
8003	4061	164	500	957	7717	36790	19886	119037	8042227	./SPAdes/tmp_sj15/scaffolds.fasta (hybridSPAdes with MiSeq+ SJ_15 all 2D ONT)
7333	3689	236	500	1189	5030	27457	13303	66350	8253939	./SPAdes/tmp_sj16/scaffolds.fasta (hybridSPAdes with MiSeq+ SJ_16 all 2DONT)
7224	3637	186	500	1189	5601	33561	18362	97765	8284647	./SPAdes/tmp_all/scaffolds.fasta (hybridSPAdes with MiSeq+ [SJ_15+SJ_16] all 2D ONT)

*Note: miniasm assemblies of SJ_15, SJ_16 and SJ_15+SJ_16 yielded no contigs
/gsc/btl/linuxbrew/bin/minimap -Sw5 -m0 -k 10 sjBOTH-ONT.fa sjBOTH-ONT.fa | /gsc/btl/linuxbrew/bin/miniasm -f sjBOTH-ONT.fq - > NTM_contigs.gfa
in
/projects/rwarren_prj2/ntm/MinION/SJ_16/MINASM