Friday
BACK: 2015 Main Page
Metagenomics with MEGAN - Peter Hoyt (8:30 -11:00)
SLIDES: https://drive.google.com/open?id=0BwLI3KMs2RkrVTI2Z2FGdEJkNU0
EXERCISES: https://drive.google.com/open?id=0BwLI3KMs2RkreUJqdnNlcHhtSEU
MEGAN5 Manual: http://ab.inf.uni-tuebingen.de/data/software/megan5/download/manual.pdf
DATAFILES: http://de.iplantcollaborative.org/dl/d/AEBAEF85-09D2-4F4B-AA44-DF2BE16CDB8E/3846ouput-trimmed.fasta
http://de.iplantcollaborative.org/dl/d/81BCB464-7AEE-4A07-873D-1E2AE1D02BA7/3845ouput-trimmed.fasta
http://de.iplantcollaborative.org/dl/d/4DF6947A-C2B3-423B-A08F-A17B9C75F1B0/846_large_blastx_out.txt
http://de.iplantcollaborative.org/dl/d/885052A9-6CDB-4035-805E-4D4218E6648B/845_large_blastx_out.txt
iRODS-iDROPLinktosoftware: http://de.iplantcollaborative.org/dl/d/BB298AD6-3E1C-4004-A1B3-82705AD1D2C3/iDrop_windows-x64_2_0_1-beta3.exe
Student presentations on assembly, annotation, and metagenomics: (12:00 - end)
Group 1
454 vs Illumina
SRR1199563.sra OSU ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/SRR/SRR119/SRR1199563/SRR1199563.sra
SRR1293629.sra Illumina Interlaced ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/SRR/SRR153/SRR1531023/SRR1531023.sra
Group 2
Metagenome analysis with MEGAN5
http://www.ncbi.nlm.nih.gov/sra/SRX266696%5Baccn%5D
http://www.ncbi.nlm.nih.gov/sra/SRX266695%5Baccn%5D
Group 3
https://pods.iplantcollaborative.org/wiki/display/eot/RNA-Seq_tutorial
/iplant/home/shared/iplant_training/intro_rna-seq/01_input_data
hy5_rep1.fastq
hy5_rep2.fastq
WT_rep1.fastq
WT_rep2.fastq
Group 4
Older sequence vs Newer sequence
http://www.ncbi.nlm.nih.gov/Traces/wgs/?download=BAOD01.1.gbff.gz
ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/SRR/SRR925/SRR925383/SRR925383.sra
Group 5
454, MiSeq, HiSeq
ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/SRR/SRR120/SRR1207329/SRR1207329.sra
ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/ERR/ERR472/ERR472607/ERR472607.sra
ftp://ftp-trace.ncbi.nlm.nih.gov/sra/sra-instant/reads/ByRun/sra/DRR/DRR015/DRR015701/DRR015701.sra