Users can select from the link below the SeqCode command binary to run in Mac OS-X environments:

List of SeqCode binary files (Catalina/mac osx 19.6.0) (gcc Apple LLVM version 10.0.1 (clang-1001.0.46.4))
List of SeqCode binary files (Mojave/mac osx 18.7.0) (gcc Apple clang version 12.0.0 (clang-1200.0.32.28))

Benchmark on a comprenhensive dataset of 25 ChIP-seq experiments including outputs and info messages:

(1/4) List of experiments:

[ChIP-seq from mouse]

GSE79606

Beringer M, Pisano P, Di Carlo V, Blanco E et al. EPOP Functionally
Links Elongin and Polycomb in Pluripotent Stem Cells. Mol Cell 2016 Nov
17;64(4):645-658. PMID: 27863225

GSM2098958 	  H3K4me3 replicate 1	H3K4me3_mESC
GSM2098952 	  H3K27me3	    	H3K27me3_mESC
GSM2098948 	  Suz12 replicate 1 	Suz12_mESC
GSM2098946 	  C17orf96 replicate 2 	Epop_mESC
GSM2430240 	  Jarid2 replicate 1 	Jarid2_mESC

-----------------

GSE67868

Morey L, Santanach A, Blanco E, Aloia L et al. Polycomb Regulates Mesoderm Cell
Fate-Specification in Embryonic Stem Cells through Activation and Repression Mechanisms.
Cell Stem Cell 2015 Sep 3;17(3):300-15. PMID: 26340528

GSM1657387     ESC Mel18 [ChIP-seq]	Mel18_ESC

-----------------

GSE67868

Morey L, Santanach A, Blanco E, Aloia L et al. Polycomb Regulates Mesoderm
Cell Fate-Specification in Embryonic Stem Cells through Activation and Repression
Mechanisms. Cell Stem Cell 2015 Sep 3;17(3):300-15. PMID: 26340528

GSM2610616  ChIP_HA-Cbx6_R1	Cbx6_mESC
GSM2610619  ChIP_Cbx7  		Cbx7_mESC

-----------------

GSE99530

Mas G, Blanco E, Ballaré C, Sansó M et al. Promoter bivalency favors an open chromatin
architecture in embryonic stem cells. Nat Genet 2018 Oct;50(10):1452-1462. PMID: 30224650

GSM2645501   ChIP_Mll2_WT      	      MLL2_mESC
GSM2645511   ChIP_H3K36me3_WT	      H3K36me3_mESC
GSM2645513   ChIP_H3K27ac_WT	      H3K27ac_mESC
GSM2645503   ChIP_Pol2Ser5P_WT	      Ser5P_mESC
GSM2645515   ChIP_CTCF_WT	      CTCF_mESC
GSM2645505   ChIP_IgG_WT	      IgG_mESC
GSM2645509   ChIP_Ring1b_WT	      Ring1B_mESC

[ChIP-seq from human]

GSE135623

Jain P, Ballare C, Blanco E, Vizan P et al. PHF19 mediated regulation of
proliferation and invasiveness in prostate cancer cells. Elife 2020 Mar 10;9.
PMID: 32155117

GSM4023634	ChIPseq_PHF19_CTR	PHF19_DU145
GSM4023636 	ChIPseq_EZH2_CTR	EZH2_DU145
GSM4023638 	ChIPseq_SUZ12_CTR	SUZ12_DU145
GSM4023640 	ChIPseq_H3K27me3_CTR	H3K27me3_DU145
GSM4023642 	ChIPseq_INPUT_CTR	INPUT_DU145
GSM4023643 	ChIPseq_MTF2_CTR	MTF2_DU145

-----------------

GSE131286

Sánchez-Molina S, Figuerola-Bou E, Blanco E, Sánchez-Jiménez M et al. RING1B recruits
EWSR1-FLI1 and cooperates in the remodeling of chromatin necessary for Ewing sarcoma
tumorigenesis. Sci Adv 2020 Oct;6(43). PMID: 33097530

GSM3768754     ChIPseq_RING1B_Replicate1		RING1B_EwS
GSM3768756     ChIPseq_INPUTforRING1B_Replicate1	INPUT_EwS
GSM3768758     ChIPseq_H2Aub1_Replicate1		H2AUb1_EwS
GSM4616796     ChIPseq_EWSR1-FLI1			FLI1_EwS

(2/4) Outputs and progress reports (Catalina binaries):
- Output folders
- Info messages

(3/4) Outputs and progress reports (Mojave binaries):
- Output folders
- Info messages

(4/4) Perl script automatizing the benchmarking:
- Perl script (Catalina)
- Perl script (Mojave)
- README


Please, find further information about SeqCode standalone release on the following links:

• The SeqCode source code full distribution is accessible from GitHub at:
  https://github.com/eblancoga/seqcode


• Details about how to setup the SeqCode applications in your computer:
  [SETUP]


• Basic description of the SeqCode command line program usage:
  [USAGE]


• List of SeqCode commands furnished with examples:
  [COMMANDS]


• Definition of genome data file formats:
  [FORMATS]