Releases: snakemake/snakemake-wrappers
Releases · snakemake/snakemake-wrappers
v3.13.1
v3.13.0
v3.12.2
Performance Improvements
- autobump bio/cutadapt/pe (#3006) (6b6d07d)
- autobump bio/cutadapt/se (#3005) (4d771f5)
- autobump bio/encode_fastq_downloader (#3007) (af40616)
- autobump bio/last/lastal (#2992) (3514346)
- autobump bio/last/lastal (#3008) (85607f8)
- autobump bio/last/lastdb (#2993) (7841808)
- autobump bio/last/lastdb (#3009) (4cee18d)
- autobump bio/mapdamage2 (#2995) (fea552c)
- autobump bio/mapdamage2 (#3010) (b2bcd56)
- autobump bio/ngsderive (#2996) (e5bfa94)
- autobump bio/open-cravat/module (#3012) (2fe1756)
- autobump bio/open-cravat/run (#3011) (0bbef93)
- autobump bio/pbmm2/align (#2998) (b50e222)
- autobump bio/pbmm2/index (#2997) (fb96fe5)
- autobump bio/picard/collectinsertsizemetrics (#3013) (f93af0b)
- autobump bio/sourmash/compute (#2999) (12d87ec)
- autobump bio/spades/metaspades (#3014) (e005b6e)
- autobump bio/vep/plugins (#3016) (9861c57)
- Update Datavzrd wrapper (#3002) (8d76d60)
v3.12.1
v3.12.0
Features
Performance Improvements
- autobump bio/entrez/efetch (#2980) (c3d76eb)
- autobump bio/kallisto/quant (#2247) (11dd11e)
- autobump bio/multiqc (#2981) (bf34418)
- autobump bio/ngs-disambiguate (#2982) (8cdb584)
- autobump bio/open-cravat/module (#2983) (7942f61)
- autobump bio/open-cravat/run (#2984) (099d86a)
- autobump bio/spades/metaspades (#2986) (6286c02)
v3.11.0
Features
- add samtools markdup wrapper (#2926) (3c86bae)
- Add support for regions file and arbitrary FAI/GZI paths (#2936) (445b35f)
- add wrapper to samtools collate (#2929) (0c7ae27)
- All ngsderive subcommands (#2732) (847ab1d)
- auto infer run mode (#2937) (08bd3cd)
- Goleft indexcov (#2734) (ebef6f8)
Bug Fixes
- bamcoverage without effective genome size (#2941) (b6ad55f)
- issue #366 and #2649 (#2928) (e10ab57)
- remove NA string replacement, fixed upstream (#2940) (8f4d223)
Performance Improvements
- autobump bio/bismark/bam2nuc (#2943) (9228479)
- autobump bio/bismark/bismark (#2948) (d9abb20)
- autobump bio/bismark/bismark_genome_preparation (#2945) (899ae0d)
- autobump bio/bismark/bismark_methylation_extractor (#2944) (1b232d2)
- autobump bio/bismark/bismark2bedGraph (#2947) (ab29098)
- autobump bio/bismark/bismark2report (#2951) (13dd155)
- autobump bio/bismark/bismark2summary (#2946) (bfb3d30)
- autobump bio/bismark/deduplicate_bismark (#2950) (bcf3c06)
- autobump bio/bowtie2/align (#2949) (6b0593f)
- autobump bio/bowtie2/build (#2942) (5b3ca20)
- autobump bio/bwa-mem2/mem-samblaster (#2962) (ff613f3)
- autobump bio/bwa/mem-samblaster (#2961) (83754dd)
- autobump bio/fastq_screen (#2952) (e45fcac)
- autobump bio/freebayes (#2963) (7a0d553)
- autobump bio/gatk/applybqsr (#2938) (498c67f)
- autobump bio/gatk3/realignertargetcreator (#2931) (2d2835c)
- autobump bio/gdc-api/bam-slicing (#2954) (32d25c1)
- autobump bio/goleft/indexcov (#2930) (5ccbdb0)
- autobump bio/gseapy/gsea (#2953) (dda3d16)
- autobump bio/hifiasm (#2932) (3722de7)
- autobump bio/multiqc (#2955) (91ad107)
- autobump bio/ngsderive (#2964) (df82b38)
- autobump bio/open-cravat/module (#2966) (f1ffa3e)
- autobump bio/open-cravat/run (#2965) (9b371ca)
- autobump bio/ptrimmer (#2933) (cd37e0b)
- autobump bio/rasusa (#2967) (9f25643)
- autobump bio/rbt/csvreport (#2956) (b2a469d)
- autobump bio/sambamba/flagstat (#2973) (4575792)
- autobump bio/sambamba/index (#2971) (18359ac)
- autobump bio/sambamba/markdup (#2968) (191542d)
- autobump bio/sambamba/merge (#2975) (adf9a28)
- autobump bio/sambamba/slice (#2972) (88ac3f6)
- autobump bio/sambamba/sort (#2976) (990e841)
- autobump bio/sambamba/view (#2970) (613e55d)
- autobump bio/seqkit (#2969) (e25b840)
- autobump bio/sra-tools/fasterq-dump ([#2974](https://www.github.com/snakemake/snakemake-wrappers/...
v3.10.2
v3.10.1
v3.10.0
Features
- Add wrapper for filtering TTree in ROOT (#2900) (c294552)
- enable YTE templating in datavzrd config file (#2916) (97262a5)
Performance Improvements
- autobump bio/cooltools/dots (#2908) (7f53f54)
- autobump bio/cooltools/eigs_cis (#2904) (efe1887)
- autobump bio/cooltools/eigs_trans (#2903) (843e331)
- autobump bio/cooltools/expected_cis (#2902) (c9ef619)
- autobump bio/cooltools/expected_trans (#2909) (91d92d1)
- autobump bio/cooltools/insulation (#2906) (f51323a)
- autobump bio/cooltools/pileup (#2905) (6aa0897)
- autobump bio/cooltools/saddle (#2907) (925f413)
- autobump bio/gatk/applybqsrspark (#2911) (cbe905b)
- autobump bio/gatk3/indelrealigner (#2910) (40aa8f1)
- autobump bio/mapdamage2 (#2912) (ea1bfbd)
- autobump bio/open-cravat/module (#2913) (593839d)
- autobump bio/open-cravat/run (#2914) (476823b)
- Update Datavzrd to 2.36.10 (#2915) (c0a7ddf)
v3.9.0
Features
Bug Fixes
Performance Improvements
- autobump bio/bcftools/call (#2828) (cd25cc8)
- autobump bio/bcftools/concat (#2832) (785cd77)
- autobump bio/bcftools/filter (#2821) (c4c2315)
- autobump bio/bcftools/index (#2829) (3ea7efb)
- autobump bio/bcftools/merge (#2827) (b1aee95)
- autobump bio/bcftools/mpileup (#2817) (9b9c0ea)
- autobump bio/bcftools/norm (#2819) (7126185)
- autobump bio/bcftools/reheader (#2822) (a77fa02)
- autobump bio/bcftools/sort (#2825) (7c9bb6d)
- autobump bio/bcftools/stats (#2813) (78e1ed6)
- autobump bio/bcftools/view (#2837) (ba4cb3b)
- autobump bio/bellerophon (#2834) (f9c272e)
- autobump bio/benchmark/chm-eval-sample (#2830) (9911338)
- autobump bio/bgzip (#2839) (8b1d2d7)
- autobump bio/bismark/bam2nuc (#2815) (1462242)
- autobump bio/bismark/bismark (#2812) (62ee915)
- autobump bio/bismark/bismark_genome_preparation (#2820) (108387c)
- autobump bio/bismark/bismark_methylation_extractor (#2814) (47a2c50)
- autobump bio/bismark/bismark2bedGraph (#2831) (556aadd)
- autobump bio/bismark/bismark2report (#2808) (b788b96)
- autobump bio/bismark/bismark2summary (#2809) (ff32047)
- autobump bio/bismark/deduplicate_bismark (#2841) (d897740)
- autobump bio/bowtie2/align (#2810) (f9b273e)
- autobump bio/bwa-mem2/mem (#2824) (a4451ea)
- autobump bio/bwa-meme/mem (#2836) (7f2a24b)
- autobump bio/bwa-memx/index (#2816) (d218b2b)
- autobump bio/bwa-memx/mem (#2826) (e7baf43)
- autobump bio/bwa/aln (#2833) (b41d0b4)
- autobump bio/bwa/index (#2838) (946d5c3)
- autobump bio/bwa/mem (#2818) (2d49db7)
- autobump bio/bwa/mem-samblaster (#2840) (0fc7d78)
- autobump bio/bwa/sampe (#2811) (a6367ba)
- autobump bio/bwa/samse (#2823) (6d2b199)
- autobump bio/bwa/samxe (#2835) (a375c11)
- autobump bio/cnvkit/antitarget (#2848) (91354dc)
- autobump bio/cnvkit/batch (#2849) (9fae85d)
- autobump bio/cnvkit/call (#2844) (5437973)
- autobump bio/cnvkit/diagram (#2846) (bcfcbed)
- autobump bio/cnvkit/export (#2843) (c499d71)
- autobump bio/cnvkit/target (#2847) (a41c0a0)
- autobump bio/cutadapt/pe (#2845) (77a7990)
- autobump bio/cutadapt/se ([#2842](https://www.github.com/snakemake/snakemak...