Iterative and sensitive NGS sequence aligner
InDelFixer is a sensitive aligner for 454, Illumina and PacBio data, employing a full Smith-Waterman alignment against a reference. This Java command line application aligns Next-Generation Sequencing (NGS) and third-generation reads to a set of reference sequences, by a prior fast k-mer matching and removes indels, causing frame shifts. In addition, only a specific region can be considered. An iterative refinement of the alignment can be performed, by alignment against the consensus sequence with wobbles. The output is in SAM format.
| System | Target | Derivation | Build status |
|---|---|---|---|
| x86_64-linux | /gnu/store/38zzzdaxcz2drv1dgz5z3gyhr93vl4am-indelfixer-1.1.drv | ||
| riscv64-linux | /gnu/store/cpc9dc0y5lg7kk4n86nsq41qjkl4gq4h-indelfixer-1.1.drv | ||
| powerpc-linux | /gnu/store/r42a00vqakck76l78ii6d9qb4aa330jk-indelfixer-1.1.drv | ||
| powerpc64le-linux | /gnu/store/08nmhjp462z1vci0gcgnf0v9arpxnx3i-indelfixer-1.1.drv | ||
| i686-linux | /gnu/store/4ykw52ak9lakflb3khb3cj3y1nz0ynpa-indelfixer-1.1.drv | ||
| armhf-linux | /gnu/store/mnh15w901p86q65ql40gda036my0b8qa-indelfixer-1.1.drv | ||
| aarch64-linux | /gnu/store/hfyzkbsy39cakm1r3gm3dr8yaq3aczwg-indelfixer-1.1.drv |
| Linter | Message | Location |
|---|---|---|
| input-labels Identify input labels that do not match package names | label 'java-commons-lang2' does not match package name 'java-commons-lang' |