NVIDIA-Genomics-Research GenomeWorks issues

NVIDIA-Genomics-Research / GenomeWorks

SDK for GPU accelerated genome assembly and analysis

https://clara-parabricks.github.io/GenomeWorks/

Apache License 2.0

286 stars 76 forks source link

issues

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[sdk] Update the way we fetch CUB

#570 mimaric closed 3 years ago
2
[sdk] Update CUB submodule to new URL and version 1.11.0

#569 ahehn-nv closed 3 years ago
10
Merge branch 'master' (0.5.3) into `dev-v0.6.0`

#568 ohadmo closed 4 years ago
0
[cudaextender] Add new cuadextender module to GW

#567 tijyojwad closed 4 years ago
0
[cudapoa/cudaaligner] fix compute version to 60

#566 tijyojwad closed 3 years ago
2
[cudamapper] Accuracy improvements through chaining

#565 edawson opened 4 years ago
0
[cudaextender] Add CUDA Extender module with Ungapped X-Drop extension

#564 atadkase closed 4 years ago
1
[cudamapper] Filtering for self mappings, identical overlaps, and highly-similar overlaps

#563 edawson opened 4 years ago
0
[pygenomeworks] Fix counts of incorrect starts and ends in evaluate_paf

#562 edawson closed 4 years ago
0
[common] Fixed a compiler warnings and a problem with CUDA 11

#561 ahehn-nv closed 4 years ago
4
[pygenomeworks] evalute_paf does not properly report the number of incorrect starts/ends

#560 edawson closed 4 years ago
0
[pygenomeworks] Support reading compressed PAF as input

#559 edawson opened 4 years ago
0
[readme] clarify gcc support in README

#558 tijyojwad closed 4 years ago
0
[pygenomeworks] Updates the evaluate_paf script.

#557 edawson closed 4 years ago
0
[cudamapper]: Print in SAM format

#556 nvvishanthi closed 4 years ago
9
Merge master branch (0.5.2) into dev-0.6.0

#555 ohadmo closed 4 years ago
0
GenomeWorks compiling error

#554 asan-emirsaleh closed 4 years ago
12
[cudaaligner] fixed an integer overflow

#553 ahehn-nv closed 4 years ago
0
[cudapoa] improving cudaPOA performance

#552 r-mafi closed 4 years ago
0
[cudapoa] GFA output

#551 edawson closed 3 years ago
0
[cudamapper] IndexGPU correctly skips too short reads and does not copy basepairs twice

#550 mimaric closed 4 years ago
0
[cudamapper] Let create_index() accept an IndexDescriptor

#549 nvvishanthi closed 4 years ago
8
Anchmer experimentation

#548 edawson closed 3 years ago
0
[cudapoa] reduce register count in cudapoa kernels

#547 tijyojwad closed 4 years ago
0
[cudamapper] Added NVTX ranges and removed allocation logging from IndexGPU and Matcher

#546 mimaric closed 4 years ago
0
[cudamapper] Minimizer uses thrust::inclusive_scan

#545 mimaric closed 4 years ago
0
[cudamapper] Moved cudaStreamSynchronize for merged_basepairs_h after the call to SketchElementImpl::generate_sketch_elements()

#544 mimaric closed 4 years ago
1
[cudamapper] Small improvements to IndexGPU

#543 ahehn-nv closed 4 years ago
1
API [cudasequence] - A draft for an encoded sequence.

#542 ahehn-nv closed 3 years ago
1
[common] Rename device_copy_n to reflect non-blocking behavior

#541 ahehn-nv closed 3 years ago
1
API [cudaungappedextender] Add skeleton for API and API usage samples

#540 atadkase closed 4 years ago
2
[cudamapper] Index should accept IndexDescriptor

#539 mimaric closed 4 years ago
0
[hotfix][sdk] update cmake structure

#538 tijyojwad closed 4 years ago
2
[sdk] update version number for branch

#537 tijyojwad closed 4 years ago
0
[cudamapper] Create public interface for IndexDescriptor class

#536 nvvishanthi closed 4 years ago
5
[release v0.5.0] Merge dev-v0.5.0 into master

#535 tijyojwad closed 4 years ago
0
[docs] remove checked in cpp files as they're not available on github…

#534 tijyojwad closed 4 years ago
0
[README] update pygw README

#533 tijyojwad closed 4 years ago
0
[SDK] Test auto release

#532 ohadmo closed 4 years ago
1
[cudamapper] Do not do self-mapping of reads

#531 mimaric opened 4 years ago
1
[README] update pygw README

#530 tijyojwad closed 4 years ago
0
[README] update README for new release

#529 tijyojwad closed 4 years ago
0
[cudapoa] consolidate macros for banded alignment in single header

#528 tijyojwad opened 4 years ago
0
[cudapoa] add description to error codes

#527 r-mafi closed 3 years ago
0
[cudamapper] Throw custom exception when Index not found

#526 mimaric closed 4 years ago
0
[cudamapper] Use stream callback functions to update Index state

#525 mimaric opened 4 years ago
0
[cudamaper] Use events to sync generation and communication streams

#524 mimaric opened 4 years ago
0
[cudamapper] Overlap index fetching with overlap computation

#523 mimaric closed 4 years ago
9
[cudapoa] unify CUDA kernels in banded and adaptive NW

#522 r-mafi closed 4 years ago
0
[cudapoa] unifying closely related numerous parameters related to POA graph length

#521 r-mafi closed 4 years ago
1

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