I tested building an index for a small sequence on my Mac and a linux system, but wasn't able to reproduce it. Would you like to send me your file, and also let me know your bowtie2-build command and details about the system you used? billzt commentedon Mar 19, 2016 I use the ...
# Building a small index bowtie2-build example/reference/lambda_virus.fa example/index/lambda_virus 建立好索引后会得到6个文件 example/index/lambda_virus.1.bt2, example/index/lambda_virus.2.bt2, example/index/lambda_virus.3.bt2, example/index/lambda_virus.4.bt2, example/index/lambda_viru...
Building a SMALL index Reading reference sizes Time reading reference sizes: 00:00:17 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:12 bmax according to bmaxDivN setting: 715331782 Using parameters --bma...
Change max size of small index to 2GB when using SAIS Jan 4, 2024 bowtie2-inspect Update python scripts to support python3 Jan 8, 2020 bowtie_build_main.cpp Changing my email address Dec 19, 2012 bowtie_main.cpp merging in master ...
Max bucket size, len divisor: 4 Difference-cover sample period: 1024 Endianness: little Actual local endianness: little Sanity checking: disabled Assertions: disabled Random seed: 0 Sizeofs: void*:8, int:4, long:8, size_t:8 Input files DNA, FASTA:hg19/hg19.fa Building a SMALL index Read...
The original sequence FASTA files are no longer used by Bowtie 2 once the index is built. Bowtie 2's .bt2 index format is different from Bowtie 1's .ebwt format, and they are not compatible with each other. Examples # Building a small index bowtie2-build example/reference/lambda_...
mm10.faBuildingaSMALLindexReadingreference sizesTimereading reference sizes:00:00:11Calculatingjoined lengthWritingheaderReservingspaceforjoinedstringJoiningreference sequencesTimetojoinreference sequences:00:00:09bmax according to bmaxDivN setting:663195875Usingparameters--bmax497396907--dcv1024Doingahead-of-...
It should be possible to build Bowtie 2 on most vanilla Linux installations or on a Mac installation with Xcode installed. Bowtie 2 can also be built on Windows using Cygwin or MinGW (MinGW recommended). If building with MinGW, first install MinGW and MSYS, the zlib library, and the ...
Building a SMALL index Reading reference sizes Time reading reference sizes: 00:00:17 Calculating joined length Writing header Reserving space for joined string Joining reference sequences Time to join reference sequences: 00:00:12 bmax according to bmaxDivN setting: 715331782 ...
# Building a small indexbowtie2-build example/reference/lambda_virus.fa example/index/lambda_virus 建立好索引后会得到6个文件 example/index/lambda_virus.1.bt2, example/index/lambda_virus.2.bt2, example/index/lambda_virus.3.bt2, example/index/lambda_virus.4.bt2, ...