rhpvorderman sequali issues

rhpvorderman / sequali

Fast sequencing data quality metrics

GNU Affero General Public License v3.0

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issues

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Switch to using the stable ABI

#210 rhpvorderman opened 20 hours ago
0
Ignore secondary and supplementary alignment records.

#209 rhpvorderman closed 5 days ago
0
Add Python 3.13 support. Deprecate 3.8 support.

#208 rhpvorderman closed 1 week ago
0
Python 3.13 support

#207 rhpvorderman closed 1 week ago
0
Remove redundant "the"

#206 rhpvorderman closed 1 week ago
0
Only sample the read extremities rather than the entire read to prevent a lot of false positive overrepresented sequences.

#205 rhpvorderman closed 1 week ago
0
Investigate the CPython limited ABI

#204 rhpvorderman opened 2 weeks ago
0
Use alignment flags like samtools fastq

#203 rhpvorderman closed 5 days ago
0
Small typo under Adapter content section

#202 SergeWielhouwer closed 1 week ago
1
Release 0.12.0

#201 rhpvorderman closed 1 month ago
1
Release 0.12.0

#200 rhpvorderman closed 1 month ago
0
Add support for read splitting tags

#199 rhpvorderman opened 1 month ago
0
Properly name percentiles in sequence length distribution

#198 rhpvorderman closed 1 month ago
0
Add N50 and N90 as summary statistics

#197 rhpvorderman opened 1 month ago
0
Improvement: HiFi smrtbell adapter detection

#196 Sebastien-Raguideau opened 1 month ago
4
Fix error where missing qualities in BAM file were not properly converted

#195 rhpvorderman closed 1 month ago
0
N50 is not a median

#194 Sebastien-Raguideau closed 1 month ago
8
Invalid character found unclear on whitespace characters.

#193 rhpvorderman opened 1 month ago
0
Update UniVec database. Remove duplicates from oxford_nanopore.fasta

#192 rhpvorderman closed 3 months ago
1
Release 0.11.1

#191 rhpvorderman closed 3 months ago
0
Release 0.11.1

#190 rhpvorderman closed 3 months ago
0
Fix memory leak when creating FastqRecordArrayView

#189 rhpvorderman closed 3 months ago
0
Intermittent increased memory usage on CPython 3.12

#188 rhpvorderman closed 3 months ago
1
Release 0.11.1

#187 rhpvorderman closed 3 months ago
1
Release 0.11.0

#186 rhpvorderman closed 3 months ago
0
Release 0.11.0

#185 rhpvorderman closed 3 months ago
0
Use floor rather than round for phred scores

#184 rhpvorderman closed 3 months ago
0
Make plot ids reproducible

#183 rhpvorderman closed 4 months ago
0
Make HTML reports more reproducible.

#182 rhpvorderman closed 4 months ago
1
Add pre-commit ci

#181 rhpvorderman closed 4 months ago
0
Simplified dispatch for sequence identity functions

#180 rhpvorderman closed 4 months ago
1
Use clang-format and pre-commit

#179 rhpvorderman closed 4 months ago
0
Simplify GC content percentage count.

#178 rhpvorderman closed 5 months ago
0
Improve BAM nibble decoding and dispatch functions at load time.

#177 rhpvorderman closed 5 months ago
0
Add FastQC-like "judgements" on the quality of the library

#176 rhpvorderman opened 5 months ago
0
Switch prefetching to compiler builtins, so it works on all architectures.

#175 rhpvorderman closed 5 months ago
0
"Solve" the insert size distribution in order to extrapolate the estimate.

#174 rhpvorderman closed 1 week ago
3
Improve overrepresented sequence sampling so common genome repeats show up less.

#173 rhpvorderman opened 5 months ago
4
Rewrite some sections of the code so that these do not require SSE2 intrinsics for speed.

#172 rhpvorderman closed 5 months ago
0
Rewrite shift-AND algorithm to enable compiler auto vectorization when GCC 14.1 becomes available.

#171 rhpvorderman opened 5 months ago
0
Release 0.10.0

#170 rhpvorderman closed 5 months ago
0
Release 0.10.0

#169 rhpvorderman closed 5 months ago
0
Make overrepresented table entries a fixed size table with scrolling.

#168 rhpvorderman closed 5 months ago
0
Stage hashes to prevent in-sequence duplication to affect overrepresented sequences

#167 rhpvorderman closed 6 months ago
0
Check if sequences occur multiple times in the same read.

#166 rhpvorderman closed 5 months ago
2
Heed clang compile warnings.

#165 rhpvorderman closed 6 months ago
0
Speed up sequence identity calculation by more than 10 times using AVX2 instructions

#164 rhpvorderman closed 6 months ago
0
Calculate sequence identity using avx2 vectors

#163 rhpvorderman closed 6 months ago
0
Release 0.9.1

#162 rhpvorderman closed 6 months ago
0
Release 0.9.1

#161 rhpvorderman closed 6 months ago
0