rhpvorderman sequali issues

rhpvorderman / sequali

Fast sequencing data quality metrics

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issues

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Properly name percentiles in sequence length distribution

#198 rhpvorderman closed 3 days ago
0
Add N50 and N90 as summary statistics

#197 rhpvorderman opened 3 days ago
0
Improvement: HiFi smrtbell adapter detection

#196 Sebastien-Raguideau opened 3 days ago
1
Fix error where missing qualities in BAM file were not properly converted

#195 rhpvorderman closed 3 days ago
0
N50 is not a median

#194 Sebastien-Raguideau closed 3 days ago
6
Invalid character found unclear on whitespace characters.

#193 rhpvorderman opened 5 days ago
0
Update UniVec database. Remove duplicates from oxford_nanopore.fasta

#192 rhpvorderman closed 1 month ago
1
Release 0.11.1

#191 rhpvorderman closed 1 month ago
0
Release 0.11.1

#190 rhpvorderman closed 1 month ago
0
Fix memory leak when creating FastqRecordArrayView

#189 rhpvorderman closed 1 month ago
0
Intermittent increased memory usage on CPython 3.12

#188 rhpvorderman closed 1 month ago
1
Release 0.11.1

#187 rhpvorderman closed 1 month ago
1
Release 0.11.0

#186 rhpvorderman closed 1 month ago
0
Release 0.11.0

#185 rhpvorderman closed 1 month ago
0
Use floor rather than round for phred scores

#184 rhpvorderman closed 1 month ago
0
Make plot ids reproducible

#183 rhpvorderman closed 2 months ago
0
Make HTML reports more reproducible.

#182 rhpvorderman closed 2 months ago
1
Add pre-commit ci

#181 rhpvorderman closed 3 months ago
0
Simplified dispatch for sequence identity functions

#180 rhpvorderman closed 3 months ago
1
Use clang-format and pre-commit

#179 rhpvorderman closed 3 months ago
0
Simplify GC content percentage count.

#178 rhpvorderman closed 3 months ago
0
Improve BAM nibble decoding and dispatch functions at load time.

#177 rhpvorderman closed 3 months ago
0
Add FastQC-like "judgements" on the quality of the library

#176 rhpvorderman opened 3 months ago
0
Switch prefetching to compiler builtins, so it works on all architectures.

#175 rhpvorderman closed 3 months ago
0
"Solve" the insert size distribution in order to extrapolate the estimate.

#174 rhpvorderman opened 3 months ago
2
Improve overrepresented sequence sampling so common genome repeats show up less.

#173 rhpvorderman opened 3 months ago
3
Rewrite some sections of the code so that these do not require SSE2 intrinsics for speed.

#172 rhpvorderman closed 4 months ago
0
Rewrite shift-AND algorithm to enable compiler auto vectorization when GCC 14.1 becomes available.

#171 rhpvorderman opened 4 months ago
0
Release 0.10.0

#170 rhpvorderman closed 4 months ago
0
Release 0.10.0

#169 rhpvorderman closed 4 months ago
0
Make overrepresented table entries a fixed size table with scrolling.

#168 rhpvorderman closed 4 months ago
0
Stage hashes to prevent in-sequence duplication to affect overrepresented sequences

#167 rhpvorderman closed 4 months ago
0
Check if sequences occur multiple times in the same read.

#166 rhpvorderman closed 4 months ago
2
Heed clang compile warnings.

#165 rhpvorderman closed 4 months ago
0
Speed up sequence identity calculation by more than 10 times using AVX2 instructions

#164 rhpvorderman closed 4 months ago
0
Calculate sequence identity using avx2 vectors

#163 rhpvorderman closed 4 months ago
0
Release 0.9.1

#162 rhpvorderman closed 4 months ago
0
Release 0.9.1

#161 rhpvorderman closed 4 months ago
0
Fix issue with FASTQ files without adapters causing crashes for the insert size metrics module.

#160 rhpvorderman closed 4 months ago
0
sequali crashes when no adapters are found

#159 Redmar-van-den-Berg closed 4 months ago
3
Release 0.9.0

#158 rhpvorderman closed 4 months ago
0
Release 0.9.0

#157 rhpvorderman closed 4 months ago
0
Fix insert size metrics array resizing and start from a smaller size

#156 rhpvorderman closed 4 months ago
0
Paired end report has the same order as single end report.

#155 rhpvorderman closed 4 months ago
0
Add common human genome repeats and illumina Poly-G

#154 rhpvorderman closed 4 months ago
0
Add very common repeats in the human genome.

#153 rhpvorderman opened 4 months ago
0
Paired report order is hideous

#152 rhpvorderman closed 4 months ago
0
Add polyA and PolyG to contaminants

#151 rhpvorderman closed 4 months ago
0
Sequence identification in the overrepresented sequences module now uses sequence identity

#150 rhpvorderman closed 4 months ago
0
Release 0.8.0

#149 rhpvorderman closed 5 months ago
0