592 days ago
3109 days ago
Computer simulation of genetic mechanism !!
...tions from allele data frequencies http://www.ensam.inra.fr/urlb/bottleneck/bottl..., employing a minimal set of parameters. http://sammeth.net/confluence/display/si...modifying Hudson's ms software to generate samples of DNA sequences with a b...2977 days ago
Software and Tools to detect structure variation with long reads !!
...utput from BWA-MEM (use -M and -x parameter) or NGM-LR with the optional SAM attributes enabled! Mo...ture" regions Genotyping of SVs with Illumina paired-end reads from WGS samples More at https://g...2610 days ago
3011 days ago
2930 days ago
Genome Assembly Tools and Software - PART2 !!
...set of aligned sequence reads in a SAM file and a set of variant cal...om ultra-deep sequencing of a mixed sample. The package contains prog...m the burdens of data preparation. SAMMate 2.7.4 / assemblySAM 1.1 &...ds by using either a model-based or sampling-based simulation. SIS &...2688 days ago
3948 days ago
Bioinformatics Courses Around the World
...Computational Biology (Newark, New Jersey) Sequence Alignment and Modeling System (Documentation for SAM) Technical University of Den...3945 days ago
3168 days ago
Palindrome Simulation commands !
...Simulated.fa 3319 ~/Tools/art_bin_MountRainier/art_illumina -ss MSv3 -sam -i allPalindromeSimulated.fa...o paired_dat 3320 ~/Tools/art_bin_MountRainier/art_illumina -ss MSv3 -sam -i allPalindromeSimulated.fa...1738 days ago
Bash script to convert SAM to BAM visualization ready
samtools view -bS file.sam | samtools sort - file_sorted samtools index test_sorted.bam test_sorted.bai2185 days ago
Comment on "URMAP, an ultra-fast read mapper"
...ome index filename is given by the -ufi option. A filename for SAM format output is specified by -samout. Use /dev/stdout or "-" (m...reate the file. Example urmap -map reads.fastq -ufi hg38.ufi -samout reads.sam1286 days ago
Comment on "Sibelia: A comparative genomics tool"
...variable or input files are in the same folder with "Sibelia" execut...index numbers of sequences (in the same order as they apper in the i...a synteny block. Copies having the same number in the "tag" field (l...gluing "stripes" consisting of the same synteny blocks. For example,...1287 days ago