COMBINE-lab/salmon

Issues

• Salmon quant with --recoverOrphans fails without warning

  #961 opened 3 months ago by Ecas9
  0

• How to use --read-geometry when specifying start and end of the both cDNA read pairs?

  #960 opened 3 months ago by pchaturvedi-takara
  0

• Suggestions on --recoverOrphans

  #959 opened 3 months ago by LinearParadox
  0

• Best practice specifying library type for 10X data

  #958 opened 3 months ago by TereLaguinge
  0

• ERROR: Version Server Response: Not Found; missing symbol called

  #957 opened 4 months ago by abhay030592
  0

• How to use metagenomic MAGs to align metatranscriptomic reads to obtain TPMs.

  #956 opened 4 months ago by zx1474
  0

• When using SALMON quant aux_info folder is empty

  #955 opened 4 months ago by cjos238
  1

• Salmon fails to parse genes with ";" in their name

  #954 opened 4 months ago by J-Moravec
  0

• Salmon 1.10.3 build failure

  #953 opened 4 months ago by davidecarlson
  0

• Question about unassigned reads when running in alignment mode

  #952 opened 4 months ago by zxl124
  1

• Salmon alevin errors out when cell barcode length is > 31 base pairs

  #943 opened 5 months ago by connersk
  1

• Difference between the genome browser view of BAM produced by STAR and the result of Salmon

  #918 opened 9 months ago by NJU-Bio-Info
  1

• Doubts about running salmon after using STAR

  #951 opened 4 months ago by desmodus1984
  0

• Some error was reported by the same command

  #950 opened 5 months ago by YIGUIz
  0

• Salmon alevin cannot work well with 10X 3' V4 data

  #949 opened 5 months ago by Cellecta
  0

• Identical insert size and SD

  #948 opened 5 months ago by jamespblloyd-uwa
  0

• Dealing with Polycistronic transcripts

  #947 opened 5 months ago by AlvaroBernardino
  1

• Error about Transcript * appears in the reference but did not appear in the BAM

  #946 opened 5 months ago by YIGUIz
  0

• Error about Transcript * appears in the reference but did not appear in the BAM

  #945 opened 5 months ago by YIGUIz
  0

• How to read the order of the counts in the ambig_info.tsv

  #944 opened 5 months ago by callumparr
  0

• "Cannot add new cells" in Spatial Alevin Tutorial

  #942 opened 6 months ago by chrisquatjr
  1

• Error reading from the FASTA/Q stream. Minimum return code for left and right read was (-2).

  #941 opened 6 months ago by Hanjiangna
  0

• salmon quantmerge Error

  #940 opened 6 months ago by Quzelei
  0

• Clarity on how 'library_types' is inferred for meta_info.json

  #938 opened 6 months ago by pinin4fjords
  4

• Salmon index issues

  #939 opened 6 months ago by aboridetayo
  0

• Error: no valid ID found for GFF record

  #937 opened 6 months ago by duanshumeng
  0

• Problem installing salmon

  #936 opened 6 months ago by pwkooij
  0

• Indexing misses duplicates containing non-ATGC characters

  #935 opened 6 months ago by evanlawrence16
  0

• soft masked decoy

  #934 opened 6 months ago by gjones3339
  0

• Counts in ONT data

  #924 opened 8 months ago by lubitelpospat
  1

• problem with syntax of command line

  #933 opened 7 months ago by mocherry
  0

• error when trying to follow tutorial

  #931 opened 7 months ago by mocherry
  0

• Issue with dedup UMI reads

  #930 opened 7 months ago by ismaeliglesia
  0

• Orphan recovery option in rare cases causes Salmon to quit abruptly without error

  #929 opened 8 months ago by gringer
  0

• Documentation - more explanation of percent_mapped and metadata information please

  #925 opened 8 months ago by gringer
  1

• Error (bug): version `GLIBC_PRIVATE' not found

  #927 opened 8 months ago by phylars
  1

• No bug - How to explain Salmon workflow simply ? (avoid mathematics-heavy explanation)

  #926 opened 8 months ago by deekshamisri
  0

• Segmentation core dumped - Salmon quant

  #923 opened 8 months ago by rugilemat
  0

• gene body coverage

  #922 opened 9 months ago by wangjiawen2013
  0

• transcript with very small EffectiveLength

  #921 opened 9 months ago by steven-bioinfo
  0

• Issues about using salmon quant on multiple bam files

  #920 opened 9 months ago by ShaowenJ
  4

• index error

  #919 opened 9 months ago by JXAUDZF
  3

• Salmon installation problem

  #915 opened 9 months ago by bioinfolabmu
  3

• Error running salmon

  #914 opened 10 months ago by bali-eng
  0

• rapidjson internal assertion failure: IsObject()

  #913 opened 10 months ago by AndreaGhiroldi
  0

• Configure error installing salmon

  #912 opened 10 months ago by jmbono
  1

• salmon quantmerge skipped the nucleotide IDs that have multiple sequences - Metagenome dataset

  #910 opened a year ago by jiazhou0116
  2

• Precompiled asset missing for version 1.10.1

  #911 opened a year ago by paulmenzel
  0

• icu version conflict with libboost

  #909 opened a year ago by JustinYeon
  0

• After using SAMtools to convert bam to fastq, the salmon quantification mapping rate is super low: is it normal?

  #908 opened a year ago by KOBE24DUNK
  0