Results for "Assembly"
Bio-Scripts
Pack a perl program with their dependencies on Ubuntu !
...uestion paper & answer key is released... Evaluation of genome assembly software based on long readsBy BioStar 409 days ago Evaluationgenomeassemblysoftwarelongreads TGS...1505 days ago
picard tools command to get some insert statistics
#picard tools to get some insert statistics to see whether our reads seem to be in the correct place #module load picard/2.0.1 java -Xmx16g -XX:PermSize=8g -jar $PIC...1331 days ago
Install assembly-stats with conda !
(JitMetaENV) ➜ META_PE conda install -c bioconda assembly-stats Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.1210 days ago
- (JitMetaENV) ➜ assembly conda install -c bioconda prokka Collecting package metadata (current_repodata.json): done Solving environment: failed with initial frozen solve. Retr...
1209 days ago
- Use pen and paper the assemble it. If you are brave enough, you can try to assemble this set of reads: CAGATGTCCT GACCTTTTCT TAAGATCTTT TCTTTAGCCG TTTC...
1209 days ago
- (JitMetaENV) ➜ assembly conda install -c bioconda bwa Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.
1209 days ago
Install assembly-stat using conda !
vik@vik-Lenovo-ideapad-320-15ISK:~/Downloads/setu/setu$ conda install -c bioconda assembly-stats Collecting package metadata (current_repodata.json): done Solving environment: done ==> WARNING: A newer version of conda exists.1048 days ago
Tadpole is 250x faster than SPADes assembler !
...for more information. Usage: Assembly: tadpole.sh in= out= Ext...epth. showstats=t Print assembly statistics after writing cont...ed up kmer extension lookups. Assembly parameters: mincountseed=3...ve reads that cannot be used for assembly. This me...970 days ago
Bash script to simulate a genome !
# Reference https://github.com/chhylp123/hifiasm/issues/33 # Use Drosophila melongaster PacBio assembly cd /genetics/elbers/test/fly2 wget https://ftp.ncbi.nlm.nih.gov/genomes/all...911 days ago
- ...ronment, use # # $ conda activate mgsc # # To deactivate an active environment, use # # $ conda deactivate mgsc -i [path to your assembly graph] -o [output directory n...
819 days ago
