Share Amber/Cobalt/Signature results

[pdiakumis]

Adding outputs from AMBER and COBALT, and the signature results from the cancer report tables. Fixes #11.
CSV would now include the below:

urls_all |> tail(25) |> print(n = 25)
# A tibble: 25 × 7
   sbjid_libid        type                         bname                                                    size    file_id  path  presigned_url
   <glue>             <chr>                        <chr>                                                    <chr>   <chr>    <glu> <chr>        
 1 SBJ04470__L2301517 VCFi_Germline                SBJ04470__PRJ231300-germline.predispose_genes.vcf.gz.tbi 8.04K   fil.608… prod… https://stra…
 2 SBJ04470__L2301517 VCFi_Somatic                 SBJ04470__PRJ231299-somatic-PASS.vcf.gz.tbi              3.5K    fil.559… prod… https://stra…
 3 SBJ04470__L2301517 VCFi_StructuralVariantsManta SBJ04470__PRJ231299-manta.vcf.gz.tbi                     723     fil.a42… prod… https://stra…
 4 SBJ04470__L2301517 AMBER                        PRJ231300.amber.snp.vcf.gz                               11.94K  fil.bac… prod… https://stra…
 5 SBJ04470__L2301517 AMBER                        PRJ231300.amber.snp.vcf.gz.tbi                           14.45K  fil.40f… prod… https://stra…
 6 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.baf.pcf                        2.69K   fil.677… prod… https://stra…
 7 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.baf.tsv                        26.07M  fil.568… prod… https://stra…
 8 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.baf.vcf.gz                     8.26M   fil.d04… prod… https://stra…
 9 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.baf.vcf.gz.tbi                 709.99K fil.5c0… prod… https://stra…
10 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.contamination.tsv              333.12K fil.13c… prod… https://stra…
11 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.contamination.vcf.gz           107.13K fil.139… prod… https://stra…
12 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.contamination.vcf.gz.tbi       66.5K   fil.9ef… prod… https://stra…
13 SBJ04470__L2301517 AMBER                        SBJ04470__PRJ231299.amber.qc                             50      fil.a84… prod… https://stra…
14 SBJ04470__L2301517 AMBER                        amber.version                                            39      fil.098… prod… https://stra…
15 SBJ04470__L2301517 COBALT                       PRJ231300.cobalt.gc.median.tsv                           337     fil.157… prod… https://stra…
16 SBJ04470__L2301517 COBALT                       PRJ231300.cobalt.ratio.median.tsv                        484     fil.1ac… prod… https://stra…
17 SBJ04470__L2301517 COBALT                       PRJ231300.cobalt.ratio.pcf                               42.81K  fil.355… prod… https://stra…
18 SBJ04470__L2301517 COBALT                       SBJ04470__PRJ231299.chr.len                              365     fil.697… prod… https://stra…
19 SBJ04470__L2301517 COBALT                       SBJ04470__PRJ231299.cobalt.gc.median.tsv                 337     fil.7dd… prod… https://stra…
20 SBJ04470__L2301517 COBALT                       SBJ04470__PRJ231299.cobalt.ratio.pcf                     149.41K fil.1af… prod… https://stra…
21 SBJ04470__L2301517 COBALT                       SBJ04470__PRJ231299.cobalt.ratio.tsv                     114.62M fil.536… prod… https://stra…
22 SBJ04470__L2301517 COBALT                       cobalt.version                                           40      fil.ed1… prod… https://stra…
23 SBJ04470__L2301517 Signatures                   SBJ04470__PRJ231299-indel.tsv.gz                         105     fil.ec6… prod… https://stra…
24 SBJ04470__L2301517 Signatures                   SBJ04470__PRJ231299-snv_2015.tsv.gz                      117     fil.c4a… prod… https://stra…
25 SBJ04470__L2301517 Signatures                   SBJ04470__PRJ231299-snv_2020.tsv.gz                      126     fil.ba7… prod… https://stra…

[ohofmann]

Thanks for expanding this. To be entirely honest I am not sure why these are needed but it felt easier to include some additional files than having an argument about it...